Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 69 of 78
Found at i:14156485 original size:31 final size:31
Alignment explanation
Indices: 14156449--14156525 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
14156439 ACCCTGAGAG
* * *
14156449 CTTTCTTTGGTAGGCCCTGTGGCGCCAAGAT
1 CTTTCTTTGGTAGGCCCCGTGGCCCCAAGAA
* *
14156480 TTTTC-TTGGATAGGCCCCGTGGCCCCGAGAA
1 CTTTCTTTGG-TAGGCCCCGTGGCCCCAAGAA
*
14156511 CTTTCTTGGGTAGGC
1 CTTTCTTTGGTAGGC
14156526 TTTCAGGCCC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
30 4 0.11
31 30 0.81
32 3 0.08
ACGTcount: A:0.13, C:0.26, G:0.30, T:0.31
Consensus pattern (31 bp):
CTTTCTTTGGTAGGCCCCGTGGCCCCAAGAA
Found at i:14159778 original size:31 final size:30
Alignment explanation
Indices: 14159736--14159798 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
14159726 ACTGAAGACT
* *
14159736 TTGATAGGTTCAGTCACTG-TTGGTAATTCC
1 TTGATAGGTTCAG-CACTGACTGGTAATACC
14159766 TTGAGTAGGTTCAGCACTGACTGGTAATACC
1 TTGA-TAGGTTCAGCACTGACTGGTAATACC
14159797 TT
1 TT
14159799 ATGGACCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 9 0.31
31 20 0.69
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (30 bp):
TTGATAGGTTCAGCACTGACTGGTAATACC
Found at i:14179721 original size:3 final size:3
Alignment explanation
Indices: 14179715--14179742 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
14179705 AAAATGATTA
14179715 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
14179743 TCTTAAGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:14180682 original size:54 final size:55
Alignment explanation
Indices: 14180586--14180691 Score: 146
Period size: 54 Copynumber: 1.9 Consensus size: 55
14180576 TTATTATTTG
* *
14180586 ATTTTTAGGTTGTAACCTATTTTTATGTTATCACTGGATTTT-AGGTTGTAACCT
1 ATTTTTAGGTTGTAACCTATTTTTAGGTTATAACTGGATTTTAAGGTTGTAACCT
*
14180640 ATTTTTAGGTTGTAACCTATTTTTAGGTTGTAAACCT-G-TTTTAAGGTTGTAA
1 ATTTTTAGGTTGTAACCTATTTTTAGGTTAT-AA-CTGGATTTTAAGGTTGTAA
14180692 ATCGAATTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 11 0.24
56 2 0.04
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.49
Consensus pattern (55 bp):
ATTTTTAGGTTGTAACCTATTTTTAGGTTATAACTGGATTTTAAGGTTGTAACCT
Found at i:14180692 original size:19 final size:18
Alignment explanation
Indices: 14180586--14180691 Score: 126
Period size: 18 Copynumber: 5.8 Consensus size: 18
14180576 TTATTATTTG
14180586 ATTTTTAGGTTGTAACCT
1 ATTTTTAGGTTGTAACCT
* * *
14180604 ATTTTTATGTTATCA-CT
1 ATTTTTAGGTTGTAACCT
14180621 GGA-TTTTAGGTTGTAACCT
1 --ATTTTTAGGTTGTAACCT
14180640 ATTTTTAGGTTGTAACCT
1 ATTTTTAGGTTGTAACCT
14180658 ATTTTTAGGTTGTAAACCT
1 ATTTTTAGGTTGT-AACCT
* *
14180677 GTTTTAAGGTTGTAA
1 ATTTTTAGGTTGTAA
14180692 ATCGAATTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
17 3 0.04
18 53 0.71
19 19 0.25
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.49
Consensus pattern (18 bp):
ATTTTTAGGTTGTAACCT
Found at i:14180740 original size:19 final size:19
Alignment explanation
Indices: 14180624--14180740 Score: 94
Period size: 19 Copynumber: 6.3 Consensus size: 19
14180614 TATCACTGGA
*
14180624 TTTTAGGTT-GTAACCTAT
1 TTTTAGGTTGGAAACCTAT
*
14180642 TTTTAGGTT-GTAACCTAT
1 TTTTAGGTTGGAAACCTAT
* *
14180660 TTTTAGGTTGTAAACCTGT
1 TTTTAGGTTGGAAACCTAT
* * * * *
14180679 TTTAAGGTTGTAAATCGAA
1 TTTTAGGTTGGAAACCTAT
* * *
14180698 TTTTAAGTTGGAAACCAAA
1 TTTTAGGTTGGAAACCTAT
* *
14180717 ATTTAGGTGGGAAACCTAT
1 TTTTAGGTTGGAAACCTAT
14180736 TTTTA
1 TTTTA
14180741 AATTGGAAAT
Statistics
Matches: 79, Mismatches: 19, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
18 27 0.34
19 52 0.66
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (19 bp):
TTTTAGGTTGGAAACCTAT
Found at i:14181595 original size:36 final size:36
Alignment explanation
Indices: 14181545--14181732 Score: 196
Period size: 36 Copynumber: 5.2 Consensus size: 36
14181535 ATAACTATTG
* *
14181545 ATGATTATATATGTGCTTGCTAATGACGATGATATGC
1 ATGA-TATACATGTGCTTGCTAATGATGATGATATGC
* *
14181582 ATGATATACATGTGCTTGCTAATGATAACGATATGC
1 ATGATATACATGTGCTTGCTAATGATGATGATATGC
** *
14181618 AAAATATACATGTGCTTGCTAATGATGATGATGTGC
1 ATGATATACATGTGCTTGCTAATGATGATGATATGC
* * * * * * * *
14181654 ATGATATTCATGTGTTTACTACTGATGATTAAAAGA
1 ATGATATACATGTGCTTGCTAATGATGATGATATGC
* * * *
14181690 ATGATATACATGTGCTTACTATTGATGATTATAGGC
1 ATGATATACATGTGCTTGCTAATGATGATGATATGC
14181726 ATGATAT
1 ATGATAT
14181733 TTTACCCATG
Statistics
Matches: 125, Mismatches: 26, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
36 121 0.97
37 4 0.03
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.37
Consensus pattern (36 bp):
ATGATATACATGTGCTTGCTAATGATGATGATATGC
Found at i:14182648 original size:7 final size:8
Alignment explanation
Indices: 14182622--14182725 Score: 52
Period size: 9 Copynumber: 12.2 Consensus size: 8
14182612 TCCCGTCCCG
14182622 ATTATATAT
1 ATTAT-TAT
*
14182631 ATATATAAT
1 AT-TATTAT
14182640 ATT-TTAT
1 ATTATTAT
14182647 ATTAATTAT
1 ATT-ATTAT
14182656 ATTAATTAT
1 ATT-ATTAT
*
14182665 ATATATAAT
1 AT-TATTAT
14182674 ATT-TTAT
1 ATTATTAT
*
14182681 ATTTTTTAT
1 A-TTATTAT
*
14182690 AATAATTAT
1 -ATTATTAT
*
14182699 ATATATAAT
1 AT-TATTAT
*
14182708 -TTTTTAT
1 ATTATTAT
14182715 ATTAATTAT
1 ATT-ATTAT
14182724 AT
1 AT
14182726 AATACAAACC
Statistics
Matches: 74, Mismatches: 11, Indels: 20
0.70 0.10 0.19
Matches are distributed among these distances:
7 14 0.19
8 9 0.12
9 46 0.62
10 5 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
ATTATTAT
Found at i:14182650 original size:25 final size:25
Alignment explanation
Indices: 14182622--14182726 Score: 70
Period size: 23 Copynumber: 4.6 Consensus size: 25
14182612 TCCCGTCCCG
14182622 ATTATATATATATATAATATTTTAT
1 ATTATATATATATATAATATTTTAT
14182647 ATTA-AT-TATAT-T-A-A--TTAT
1 ATTATATATATATATAATATTTTAT
* * *
14182665 A-TATATA-ATATTTTATATTTTTT
1 ATTATATATATATATAATATTTTAT
* *
14182688 ATAATAATTATATATATAATTTTTTAT
1 ATTAT-A-TATATATATAATATTTTAT
14182715 ATTA-AT-TATATA
1 ATTATATATATATA
14182727 ATACAAACCC
Statistics
Matches: 62, Mismatches: 7, Indels: 24
0.67 0.08 0.26
Matches are distributed among these distances:
17 2 0.03
18 11 0.18
19 1 0.02
20 2 0.03
21 2 0.03
22 1 0.02
23 15 0.24
24 5 0.08
25 6 0.10
26 2 0.03
27 15 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTATATATATATATAATATTTTAT
Found at i:14182671 original size:34 final size:34
Alignment explanation
Indices: 14182628--14182725 Score: 160
Period size: 34 Copynumber: 2.9 Consensus size: 34
14182618 CCCGATTATA
14182628 TATATATATAATATTTTATATTAATTATATTAAT
1 TATATATATAATATTTTATATTAATTATATTAAT
** *
14182662 TATATATATAATATTTTATATTTTTTATAATAAT
1 TATATATATAATATTTTATATTAATTATATTAAT
*
14182696 TATATATATAATTTTTTATATTAATTATAT
1 TATATATATAATATTTTATATTAATTATAT
14182726 AATACAAACC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (34 bp):
TATATATATAATATTTTATATTAATTATATTAAT
Found at i:14184238 original size:2 final size:2
Alignment explanation
Indices: 14184227--14184268 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
14184217 AAAATCAATA
14184227 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14184268 A
1 A
14184269 ACAATTAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14186593 original size:20 final size:18
Alignment explanation
Indices: 14186551--14186594 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
14186541 TTTGGGTTCT
*
14186551 ATTTATTATTTTATCATA
1 ATTTATTATGTTATCATA
*
14186569 ATTTATATATGTTATCTTCA
1 ATTTAT-TATGTTATCAT-A
14186589 ATTTAT
1 ATTTAT
14186595 GCATTGTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 9 0.41
20 7 0.32
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTTATTATGTTATCATA
Found at i:14192077 original size:22 final size:21
Alignment explanation
Indices: 14192052--14192143 Score: 71
Period size: 22 Copynumber: 4.2 Consensus size: 21
14192042 TAAATAAATA
14192052 AAAATAAAAAGAAAGAAAAGAG
1 AAAATAAAAA-AAAGAAAAGAG
*
14192074 AAAA-AACAGAAAAAGAAAAGGG
1 AAAATAA-A-AAAAAGAAAAGAG
* * *
14192096 AAAAGATAGAAAAAGAAAAGGG
1 AAAATA-AAAAAAAGAAAAGAG
*
14192118 AAGAGAT-AGAAAAAGAAAAGAG
1 AA-A-ATAAAAAAAAGAAAAGAG
14192140 AAAA
1 AAAA
14192144 ATAGAAGAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
20 1 0.02
21 3 0.05
22 50 0.83
23 4 0.07
24 2 0.03
ACGTcount: A:0.73, C:0.01, G:0.23, T:0.03
Consensus pattern (21 bp):
AAAATAAAAAAAAGAAAAGAG
Found at i:14192111 original size:44 final size:44
Alignment explanation
Indices: 14192051--14192155 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 44
14192041 ATAAATAAAT
* *
14192051 AAAAATAAAAAGAAAGAAAAGAGAAAAAACAGAAAAAGAAAAGGG
1 AAAAAT-AGAAGAAAGAAAAGAGAAAAAACAGAAAAAGAAAAGAG
* * * *
14192096 AAAAGATAGAA-AAAGAAAAGGGAAGAGATAGAAAAAGAAAAGAG
1 AAAA-ATAGAAGAAAGAAAAGAGAAAAAACAGAAAAAGAAAAGAG
14192140 AAAAATAGAAGAAAGA
1 AAAAATAGAAGAAAGA
14192156 GGAGGAGGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
43 6 0.12
44 37 0.71
45 7 0.13
46 2 0.04
ACGTcount: A:0.72, C:0.01, G:0.23, T:0.04
Consensus pattern (44 bp):
AAAAATAGAAGAAAGAAAAGAGAAAAAACAGAAAAAGAAAAGAG
Found at i:14192154 original size:22 final size:21
Alignment explanation
Indices: 14192063--14192155 Score: 114
Period size: 22 Copynumber: 4.2 Consensus size: 21
14192053 AAATAAAAAG
*
14192063 AAAGAAAAGAGAAAAAACAGAA
1 AAAGAAAAGAG-AAAAATAGAA
*
14192085 AAAGAAAAGGGAAAAGATAGAA
1 AAAGAAAAGAGAAAA-ATAGAA
* *
14192107 AAAGAAAAGGGAAGAGATAGAA
1 AAAGAAAAGAGAA-AAATAGAA
14192129 AAAGAAAAGAGAAAAATAGAA
1 AAAGAAAAGAGAAAAATAGAA
14192150 GAAAGA
1 -AAAGA
14192156 GGAGGAGGAG
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
21 11 0.17
22 51 0.81
23 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.25, T:0.03
Consensus pattern (21 bp):
AAAGAAAAGAGAAAAATAGAA
Found at i:14192160 original size:3 final size:3
Alignment explanation
Indices: 14192154--14192198 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
14192144 ATAGAAGAAA
14192154 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
14192199 AAAAAAAGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:14194052 original size:64 final size:63
Alignment explanation
Indices: 14193984--14194213 Score: 212
Period size: 64 Copynumber: 3.6 Consensus size: 63
14193974 TTGGAACACT
* ***
14193984 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * * **
14194048 TGATGCATCGATGCATGGCTTGTGCATTGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * * * *
14194112 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAAT-TC
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATAGC
*
14194175 A
63 C
* *
14194176 TCGATGCATCGATGCATGGACTGATGCATCGGTGCATG
1 T-GATGCATCGATGCATGGAGTG-TGCATCGATGCATG
14194214 CCTTTGAATA
Statistics
Matches: 136, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
63 4 0.03
64 69 0.51
65 63 0.46
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:14194136 original size:19 final size:19
Alignment explanation
Indices: 14194112--14194162 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
14194102 GAAAATATTC
14194112 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
14194131 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
14194150 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
14194163 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:14194204 original size:65 final size:64
Alignment explanation
Indices: 14194006--14194213 Score: 221
Period size: 65 Copynumber: 3.2 Consensus size: 64
14193996 GCACCAAGTG
* *
14194006 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGG-CTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT-TCATGATGCATCGATGCATGGAC-TG
14194070 -
64 A
* *
14194070 TGCATTGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA--
1 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAA-ATTCATGA-TGCATCGATGCATGGACT
14194132 GA
63 GA
* * * *
14194134 GTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAATTCATCGATGCATCGATGCATGGACT
1 -TGCATCGATGCATGAAATGCATTCGATGTTTGAA-AAATTCAT-GATGCATCGATGCATGGACT
14194198 GA
63 GA
*
14194200 TGCATCGGTGCATG
1 TGCATCGATGCATG
14194214 CCTTTGAATA
Statistics
Matches: 123, Mismatches: 10, Indels: 21
0.80 0.06 0.14
Matches are distributed among these distances:
63 10 0.08
64 45 0.37
65 64 0.52
66 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (64 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATTCATGATGCATCGATGCATGGACTGA
Found at i:14202676 original size:64 final size:63
Alignment explanation
Indices: 14202608--14202837 Score: 221
Period size: 64 Copynumber: 3.6 Consensus size: 63
14202598 TTGGAACACT
* ***
14202608 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
14202672 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * * * *
14202736 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAAT-TC
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATAGC
*
14202799 A
63 C
* *
14202800 TCGATGCATCGATGCATGGACTGATGCATCGGTGCATG
1 T-GATGCATCGATGCATGGAGTG-TGCATCGATGCATG
14202838 CCTTTGAATA
Statistics
Matches: 138, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
63 4 0.03
64 70 0.51
65 64 0.46
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:14202760 original size:19 final size:19
Alignment explanation
Indices: 14202736--14202786 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
14202726 GAAAATATTC
14202736 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
14202755 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
14202774 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
14202787 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:14202828 original size:65 final size:64
Alignment explanation
Indices: 14202630--14202837 Score: 230
Period size: 65 Copynumber: 3.2 Consensus size: 64
14202620 GCACCAAGTG
* *
14202630 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGG-CTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT-TCATGATGCATCGATGCATGGAC-TG
14202694 -
64 A
*
14202694 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA--
1 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAA-ATTCATGA-TGCATCGATGCATGGACT
14202756 GA
63 GA
* * * *
14202758 GTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAATTCATCGATGCATCGATGCATGGACT
1 -TGCATCGATGCATGAAATGCATTCGATGTTTGAA-AAATTCAT-GATGCATCGATGCATGGACT
14202822 GA
63 GA
*
14202824 TGCATCGGTGCATG
1 TGCATCGATGCATG
14202838 CCTTTGAATA
Statistics
Matches: 125, Mismatches: 8, Indels: 21
0.81 0.05 0.14
Matches are distributed among these distances:
63 10 0.08
64 46 0.37
65 65 0.52
66 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (64 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATTCATGATGCATCGATGCATGGACTGA
Found at i:14203387 original size:38 final size:38
Alignment explanation
Indices: 14203339--14203491 Score: 153
Period size: 38 Copynumber: 3.9 Consensus size: 38
14203329 TCGAACTTTG
* *
14203339 TTATTATTGACTTCCTCGTGAAGAAAAGTCGATATTTA
1 TTATTCTTGACTTCCTCGTGAAGAGAAGTCGATATTTA
* * * *
14203377 TTATTCTTGACTTCCTCGTAAAGAGAAGTTGATCTTTG
1 TTATTCTTGACTTCCTCGTGAAGAGAAGTCGATATTTA
* * *
14203415 TTATTCTTGACTTCTTCGTGAAGAGAAGTCAATCTTTCA
1 TTATTCTTGACTTCCTCGTGAAGAGAAGTCGATATTT-A
* ** *
14203454 GTGTTATTCTTGACTTTCTATTGAAGAGAAGTCAATAT
1 ---TTATTCTTGACTTCCTCGTGAAGAGAAGTCGATAT
14203492 CTCGGTATTG
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
38 65 0.68
42 30 0.32
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.41
Consensus pattern (38 bp):
TTATTCTTGACTTCCTCGTGAAGAGAAGTCGATATTTA
Found at i:14203523 original size:45 final size:45
Alignment explanation
Indices: 14203412--14204028 Score: 609
Period size: 45 Copynumber: 13.8 Consensus size: 45
14203402 AAGTTGATCT
* * * *
14203412 TTGTTATTCTTGAC-TTCTTCGTGAAGAGAAGTCAATCTTTCAGTG
1 TTGTCATTCTTGACTTTC-TCGTGAAGAGGAGTCAATATTTTAGTG
** * * ** *
14203457 -T-T-ATTCTTGACTTTCTATTGAAGAGAAGTCAATATCTCGGTA
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTG
* *
14203499 TTGTCATTCTTGACTTTCTCTTGAAGAGGAGTCAATATTTCAGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTG
* *
14203544 TTGTCATCCTTGACTTTCTTGTGAAGAGGAGTCAATATTTTAGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTG
* ** * * *
14203589 TTGTCCTTCTTGACTTTCTCGCAAAGAGGATTCAAT-CTTTCGATG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAG-TG
14203634 TTGTC-TTCCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTG
1 TTGTCATT-CTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTG
* * * * * * * * * *
14203679 TTTTCCTTCTTGACTTTCTCATTAAGAGAAGTCAATCTATCAATA
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTG
* *
14203724 TTGGCATTCTTGTCTTTCTCGTGAAGAGGAGTCAATATTTTAGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTG
* * * *
14203769 TTGTCCTCCTTGATTTTCTCGTGAAGAGGAGTTAATATTTTAGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTG
* * * *
14203814 TTGTCCTTCTTGACTTTCTCGCGAAGATGAGTCAATCTTTTAGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTG
* * *
14203859 TTGTCATTCTTGACTATCTCGTGAAGAGGAGTCAATCTTTTAATG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTG
* ** * * *
14203904 TTGTCCTTCTTGACTTTCTCACGAAGAGGAGGCAATCTTTTAGTA
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTG
* * * * * *
14203949 TTGTCATTCTTGACTTTATCATGAAGAGAAGTTAATTTTTTTGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTG
* ** *
14203994 TTGTCCAAT-TTGACTTTCTCACGAAGAAGAGTCAA
1 TTGT-CATTCTTGACTTTCTCGTGAAGAGGAGTCAA
14204029 CCTTTCAGTA
Statistics
Matches: 475, Mismatches: 88, Indels: 18
0.82 0.15 0.03
Matches are distributed among these distances:
42 30 0.06
43 5 0.01
44 8 0.02
45 423 0.89
46 9 0.02
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.41
Consensus pattern (45 bp):
TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTG
Found at i:14204828 original size:134 final size:133
Alignment explanation
Indices: 14204585--14205009 Score: 541
Period size: 134 Copynumber: 3.2 Consensus size: 133
14204575 GTATGCTTGA
14204585 CTTTCA-AATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGATTATGATTCAATCTTCCCTAAA
1 CTTTCAGAA-TTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGATTATGATTCAATCTTCCCTAAA
* ** * * * * **
14204649 AATTAGTGAAGTGGATCAAAGTTTTAT-AGATTCTGATCTCTCCTAAAGAGTAGTGGATCAGATT
65 GAGCAGTGAAGTGGATCAAA-TTTTCTCA-AGTCTGATCTCCCCTAAAGAGTAGTGGATAAGACA
14204713 CTTCTT
128 CTTCTT
* * *
14204719 CTTTCAGAATTGGTCTTCCTGAAAAGCAGTGAAGCAAATCGATTCTGATTCAATCTTCTCTAAAG
1 CTTTCAGAATTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGATTATGATTCAATCTTCCCTAAAG
* * * * *
14204784 AGCAGTGAAGTGAATCAATATTTTCTCAAGTCTGATCTCCCCTAAAGTGTAATGGAGAAGACACA
66 AGCAGTGAAGTGGATCAA-ATTTTCTCAAGTCTGATCTCCCCTAAAGAGTAGTGGATAAGACACT
14204849 TCTT
130 TCTT
* * * * * *
14204853 ATTTCAGATTTGGTCTTCCTGAAGAGAAGTGAAACAAATCGATTTTGATTCAATCTTCCCTGAAG
1 CTTTCAGAATTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGATTATGATTCAATCTTCCCTAAAG
* * * *
14204918 AGCAGTGAAGTGGATCAAAATTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGATGAGACCCTT
66 AGCAGTGAAGTGGATCAAATTTTCTCAAGTCTGATCTCCCCTAAAGAGTAGTGGATAAGACACTT
14204983 CTT
131 CTT
*
14204986 -TTTCAGATTTGGTCTTCCTGAAGA
1 CTTTCAGAATTGGTCTTCCTGAAGA
14205010 ATAGTTAAGC
Statistics
Matches: 254, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
132 24 0.09
133 42 0.17
134 184 0.72
135 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (133 bp):
CTTTCAGAATTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGATTATGATTCAATCTTCCCTAAAG
AGCAGTGAAGTGGATCAAATTTTCTCAAGTCTGATCTCCCCTAAAGAGTAGTGGATAAGACACTT
CTT
Found at i:14210132 original size:38 final size:39
Alignment explanation
Indices: 14210068--14210141 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
14210058 ATAAATTTTA
*
14210068 TTTTATTTTTCCTTTTAGTTCATTATT-TTTAATTATAC
1 TTTTATTTTTCCTTTTAGTTCATTATTCCTTAATTATAC
* *
14210106 TTTTATTTTTTCTTTTA-TTGCTTTATTCCTTAATTA
1 TTTTATTTTTCCTTTTAGTT-CATTATTCCTTAATTA
14210142 ATTTTTGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 2 0.06
38 22 0.71
39 7 0.23
ACGTcount: A:0.19, C:0.11, G:0.03, T:0.68
Consensus pattern (39 bp):
TTTTATTTTTCCTTTTAGTTCATTATTCCTTAATTATAC
Found at i:14212066 original size:59 final size:59
Alignment explanation
Indices: 14211969--14212089 Score: 172
Period size: 59 Copynumber: 2.1 Consensus size: 59
14211959 GGAGGGTTGG
* * *
14211969 TTAGAGCCATATTATTTAGTTTTACTTTTCATTGCGACTAGGAGGGTTCGATAGGACAC
1 TTAGAGCCATATTATTCAGATTTACTTTTCATTACGACTAGGAGGGTTCGATAGGACAC
* * *
14212028 TTAGAGCCATATTATTCA-ATTTACCTTTTCATTACGACTATGAGGGTTTGATAGGGCAC
1 TTAGAGCCATATTATTCAGATTTA-CTTTTCATTACGACTAGGAGGGTTCGATAGGACAC
14212087 TTA
1 TTA
14212090 TCCATCTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
58 4 0.07
59 51 0.93
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (59 bp):
TTAGAGCCATATTATTCAGATTTACTTTTCATTACGACTAGGAGGGTTCGATAGGACAC
Found at i:14219174 original size:22 final size:23
Alignment explanation
Indices: 14219144--14219195 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
14219134 TACAATTTTG
14219144 AATGAGTTTTATA-ATTTTTATA
1 AATGAGTTTTATAGATTTTTATA
*
14219166 AATGGGTTTTATAGATTTTTAT-
1 AATGAGTTTTATAGATTTTTATA
*
14219188 GATGAGTT
1 AATGAGTT
14219196 GTTCATAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (23 bp):
AATGAGTTTTATAGATTTTTATA
Found at i:14236274 original size:21 final size:21
Alignment explanation
Indices: 14236250--14236296 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
14236240 TTAAATAAGG
14236250 AATTACAACCAAATCCTACCT
1 AATTACAACCAAATCCTACCT
14236271 AATTACAACCAAATCCTACCT
1 AATTACAACCAAATCCTACCT
14236292 AATTA
1 AATTA
14236297 TATCTATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.26
Consensus pattern (21 bp):
AATTACAACCAAATCCTACCT
Found at i:14237811 original size:18 final size:21
Alignment explanation
Indices: 14237774--14237811 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 21
14237764 ATTGAACTTG
14237774 TTCCAAGACTTCACACATCTT
1 TTCCAAGACTTCACACATCTT
14237795 TTCCAA-AC-TCA-ACATCT
1 TTCCAAGACTTCACACATCT
14237812 AGCTCATCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 2 0.12
21 6 0.35
ACGTcount: A:0.32, C:0.34, G:0.03, T:0.32
Consensus pattern (21 bp):
TTCCAAGACTTCACACATCTT
Found at i:14244409 original size:33 final size:33
Alignment explanation
Indices: 14244367--14244452 Score: 154
Period size: 33 Copynumber: 2.6 Consensus size: 33
14244357 CCTGAAATTG
14244367 ATGATCTCATAGATCCTTGTGTAACATTCTTAT
1 ATGATCTCATAGATCCTTGTGTAACATTCTTAT
* *
14244400 ATGATCTCATGGATCCTTGTGTAACATTCTTGT
1 ATGATCTCATAGATCCTTGTGTAACATTCTTAT
14244433 ATGATCTCATAGATCCTTGT
1 ATGATCTCATAGATCCTTGT
14244453 CATATAACTC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (33 bp):
ATGATCTCATAGATCCTTGTGTAACATTCTTAT
Found at i:14246214 original size:31 final size:31
Alignment explanation
Indices: 14246179--14246237 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
14246169 TTTTAAACCT
14246179 AGACACCTCAACATTATCATCTTCCAAACAA
1 AGACACCTCAACATTATCATCTTCCAAACAA
*
14246210 AGACATCTCAACATTATCATCTTCCAAA
1 AGACACCTCAACATTATCATCTTCCAAA
14246238 AGTCAAAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.41, C:0.31, G:0.03, T:0.25
Consensus pattern (31 bp):
AGACACCTCAACATTATCATCTTCCAAACAA
Found at i:14246405 original size:2 final size:2
Alignment explanation
Indices: 14246398--14246446 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
14246388 AAATGTGAAA
14246398 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14246439 AT AT AT AT
1 AT AT AT AT
14246447 TCAAGACAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14246515 original size:31 final size:30
Alignment explanation
Indices: 14246480--14246554 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
14246470 AAATTACCAT
* * * *
14246480 TTTGGTCCCTAAACTTTTTTAAAGTTTATAC
1 TTTGGTCACTAAAC-TTTTAAAAATTTATAA
*
14246511 TTTGGTTACTAAAC-TTTAAAAATTTATAA
1 TTTGGTCACTAAACTTTTAAAAATTTATAA
14246540 TTTGGTCACTAAACT
1 TTTGGTCACTAAACT
14246555 AAATCCATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 25 0.68
31 12 0.32
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.45
Consensus pattern (30 bp):
TTTGGTCACTAAACTTTTAAAAATTTATAA
Found at i:14251928 original size:28 final size:28
Alignment explanation
Indices: 14251895--14251969 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 28
14251885 AACCTATTAA
** *
14251895 AACATGTCATCTTGTACATAACCTTTGT
1 AACATGTCATCTCATACATAACATTTGT
*
14251923 AACATGTCATCTCATACTTAACATTTGT
1 AACATGTCATCTCATACATAACATTTGT
* * *
14251951 AACATATCATATAATACAT
1 AACATGTCATCTCATACAT
14251970 TTCACCAAGC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (28 bp):
AACATGTCATCTCATACATAACATTTGT
Found at i:14252405 original size:33 final size:33
Alignment explanation
Indices: 14252368--14252464 Score: 160
Period size: 33 Copynumber: 3.0 Consensus size: 33
14252358 TATCATGTAG
* *
14252368 CTTGTATAACAATCTTGTATGATCTCATAGATC
1 CTTGTGTAACATTCTTGTATGATCTCATAGATC
14252401 CTTGTGTAACATTCTTGTATGATCTCATAGATC
1 CTTGTGTAACATTCTTGTATGATCTCATAGATC
*
14252434 ATTGTGTAACATTCTTG-ATGATCTCATAGAT
1 CTTGTGTAACATTCTTGTATGATCTCATAGAT
14252465 TCTTATCATA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 14 0.23
33 47 0.77
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.41
Consensus pattern (33 bp):
CTTGTGTAACATTCTTGTATGATCTCATAGATC
Found at i:14252500 original size:29 final size:29
Alignment explanation
Indices: 14252458--14252518 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
14252448 TTGATGATCT
* *
14252458 CATAGATTCTTATCATATAACCCATATCA
1 CATAGATTCATATCATATAACACATATCA
* *
14252487 CATAGGTTCATATCATATAACATATATCA
1 CATAGATTCATATCATATAACACATATCA
14252516 CAT
1 CAT
14252519 GTGCATGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.34
Consensus pattern (29 bp):
CATAGATTCATATCATATAACACATATCA
Found at i:14253346 original size:22 final size:21
Alignment explanation
Indices: 14253321--14253366 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
14253311 TAACCAATCT
*
14253321 TTTTAAACTTCTAAAATGGTCA
1 TTTTAAACTTCT-AAATGCTCA
**
14253343 TTTTTCACTTCTAAATGCTCA
1 TTTTAAACTTCTAAATGCTCA
14253364 TTT
1 TTT
14253367 CAATTCCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (21 bp):
TTTTAAACTTCTAAATGCTCA
Found at i:14253471 original size:29 final size:30
Alignment explanation
Indices: 14253431--14253496 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 30
14253421 AACCATTCAT
14253431 AACTTTTCC-AAAATTACCA-AATTGGTCCCC
1 AACTTTTCCAAAAATTA-CATAA-TGGTCCCC
14253461 AACTTTT-CAAAAATTACATAATGGTCCCC
1 AACTTTTCCAAAAATTACATAATGGTCCCC
*
14253490 AAATTTT
1 AACTTTT
14253497 TCTTAGCCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (30 bp):
AACTTTTCCAAAAATTACATAATGGTCCCC
Found at i:14253498 original size:30 final size:30
Alignment explanation
Indices: 14253431--14253496 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
14253421 AACCATTCAT
*
14253431 AACTTTTCCAAAATTACCAAATTGGTCCCC
1 AACTTTTCAAAAATTACCAAATTGGTCCCC
14253461 AACTTTTCAAAAATTA-CATAA-TGGTCCCC
1 AACTTTTCAAAAATTACCA-AATTGGTCCCC
*
14253490 AAATTTT
1 AACTTTT
14253497 TCTTAGCCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (30 bp):
AACTTTTCAAAAATTACCAAATTGGTCCCC
Found at i:14258774 original size:163 final size:162
Alignment explanation
Indices: 14258467--14259056 Score: 657
Period size: 163 Copynumber: 3.6 Consensus size: 162
14258457 CTCTATGCTT
* * * *
14258467 CAAGTTCTTCTCATTATGAACTTTTCACTCTTCGGTTC-GACGAGTTCTTCTCATTATGAACCCT
1 CAAGTTCTTCTCATTATGAACTTTTCTC-CCTC--TTCGGATGAGTTCTTCTCATTATGAACCCC
* * * * * *
14258531 TCCATT-GAAATGTTGATCCACCT-TTTTTGTGATGAAATCAAACAGAATGTTTATGCTGATCTA
63 TCCATTGGAAATGTTGATCCACCTCCTTCTGTGATGGAATCAAACAGAATATTGATGTTGATCTA
* * *
14258594 TCTCCTTCTGTGATAGAATCAAGTAAAAGGGTGAA
128 CCTCCTTCTGTGATAGAATCGAGCAAAAGGGTGAA
* * *
14258629 CAAATTCTTCTCATTATGAACTTATTCTCCTTCTTTGGATGAGTTCTTCTCATTATGAACCCCTC
1 CAAGTTCTTCTCATTATGAACTT-TTCTCCCTCTTCGGATGAGTTCTTCTCATTATGAACCCCTC
* * **
14258694 CATTGGAAATGTTGATCCACCTCCTTTTGTGATGGAATCAAACAGACTATTGACATTGATCTACC
65 CATTGGAAATGTTGATCCACCTCCTTCTGTGATGGAATCAAACAGAATATTGATGTTGATCTACC
* *
14258759 TCATTCTATGATAGAATCGAGCAAAAGGGTGAA
130 TCCTTCTGTGATAGAATCGAGCAAAAGGGTGAA
* * *
14258792 GAAGTTCTTCTCATTATGAACCTTTTTCTCCCTCCTCGGATGAGATCTTCTCATTATGAA-CCCT
1 CAAGTTCTTCTCATTATGAA-C-TTTTCTCCCTCTTCGGATGAGTTCTTCTCATTATGAACCCCT
** * * * *
14258856 ACCATTGGAAATGACGATCCACCTCATTCTGTGATAGAATCGAACAAAATATTGATGTTGATCTA
64 -CCATTGGAAATGTTGATCCACCTCCTTCTGTGATGGAATCAAACAGAATATTGATGTTGATCTA
* * * * **
14258921 GCTCCTTCTGTGATAAAATTGAGCAAAATGGCAAA
128 CCTCCTTCTGTGATAGAATCGAGCAAAAGGGTGAA
* * * * * * * *
14258956 CAAGTTCTTCTCGTTATGAACTTCTTCTCCCTCTTCAGATAAATTCTTTTTATTATGAACACATC
1 CAAGTTCTTCTCATTATGAACTT-TTCTCCCTCTTCGGATGAGTTCTTCTCATTATGAACCCCTC
* *
14259021 CATTGGAAATGTTGATCCACCTTCTTCAGTGATGGA
65 CATTGGAAATGTTGATCCACCTCCTTCTGTGATGGA
14259057 TTTGAATCTG
Statistics
Matches: 360, Mismatches: 59, Indels: 17
0.83 0.14 0.04
Matches are distributed among these distances:
160 2 0.01
161 30 0.08
162 45 0.12
163 148 0.41
164 133 0.37
165 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (162 bp):
CAAGTTCTTCTCATTATGAACTTTTCTCCCTCTTCGGATGAGTTCTTCTCATTATGAACCCCTCC
ATTGGAAATGTTGATCCACCTCCTTCTGTGATGGAATCAAACAGAATATTGATGTTGATCTACCT
CCTTCTGTGATAGAATCGAGCAAAAGGGTGAA
Found at i:14259492 original size:102 final size:101
Alignment explanation
Indices: 14259313--14259553 Score: 279
Period size: 102 Copynumber: 2.3 Consensus size: 101
14259303 AGGTGAGACA
*
14259313 AAATTTTGTTTCGAGTGAACAATTTCAAATTTTGTACTTCAAGTGAAAATTGTCTCAACAGAGAC
1 AAATTTTGTTTCGAGCGAACAATTTCAAATTTTGTACTTCAAGTGAAAATTGTCTCAACAGAGAC
*
14259378 AAAACTGGTTTTAAGAAAAATAACTTCAAGTGAAAT
66 AAAACTGATTTTAAGAAAAATAACTTCAAGTGAAAT
**
14259414 AAATTTTGTTTCGAGCGAA-ACATTTCCAAATTTTGTGTTTCAAGTGAAAATTGTCTCAAACA-A
1 AAATTTTGTTTCGAGCGAACA-ATTT-CAAATTTTGTACTTCAAGTGAAAATTGTCTC-AACAGA
* * ** * * *
14259477 GACCAAATTGATTTTAAGAAAAACCATTTCAAGAGAGAT
63 GACAAAACTGATTTTAAGAAAAATAACTTCAAGTGAAAT
* * * *
14259516 GAACTTTTTGTTTAGAGTGAAACAATTTCAAAGTTTGT
1 -AA-ATTTTGTTTCGAGCG-AACAATTTCAAATTTTGT
14259554 GTCCCAAGGG
Statistics
Matches: 118, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
100 1 0.01
101 22 0.19
102 61 0.52
103 6 0.05
104 21 0.18
105 6 0.05
106 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (101 bp):
AAATTTTGTTTCGAGCGAACAATTTCAAATTTTGTACTTCAAGTGAAAATTGTCTCAACAGAGAC
AAAACTGATTTTAAGAAAAATAACTTCAAGTGAAAT
Found at i:14261689 original size:19 final size:20
Alignment explanation
Indices: 14261651--14261788 Score: 115
Period size: 20 Copynumber: 6.7 Consensus size: 20
14261641 TCCTTTCAGA
*
14261651 TTTCTTTTTTC-TCTTTTTTT
1 TTTCTTTTTTCTTC-TTTTTC
*
14261671 TTTCTTTTTTCTTCATTTTC
1 TTTCTTTTTTCTTCTTTTTC
14261691 TTTCTTTTCTTCTTTCTTTTTTC
1 TTTCTTTT-TTC-TTC-TTTTTC
14261714 ATTAT-TTTTTTCTT-TTTCTT-
1 -TT-TCTTTTTTCTTCTTT-TTC
*
14261734 TTTCTTGTTCTCTTCTTTTTCTC
1 TTTCTT-TTTTCTTC-TTTT-TC
*
14261757 TTTCTTTTTTCTT-TTGTTC
1 TTTCTTTTTTCTTCTTTTTC
14261776 TTTCTTTTTTCTT
1 TTTCTTTTTTCTT
14261789 TTCTTCAGGT
Statistics
Matches: 99, Mismatches: 6, Indels: 27
0.75 0.05 0.20
Matches are distributed among these distances:
18 1 0.01
19 19 0.19
20 35 0.35
21 8 0.08
22 15 0.15
23 14 0.14
24 6 0.06
25 1 0.01
ACGTcount: A:0.02, C:0.18, G:0.01, T:0.78
Consensus pattern (20 bp):
TTTCTTTTTTCTTCTTTTTC
Found at i:14261711 original size:31 final size:32
Alignment explanation
Indices: 14261656--14261794 Score: 109
Period size: 32 Copynumber: 4.4 Consensus size: 32
14261646 TCAGATTTCT
* *
14261656 TTTTTCTCTTTTTTTTTTCTTTTTTCTTCATT-
1 TTTTTCT-TTTCTTCTTTCTTTTTTCTTCATTC
14261688 TTCTTTCTTTTCTTCTTTCTTTTTTCATT-ATT-
1 TT-TTTCTTTTCTTCTTTCTTTTTTC-TTCATTC
*
14261720 TTTTTCTTTTTCTT-TTTC-TTGTTC-TC-TTC
1 TTTTTC-TTTTCTTCTTTCTTTTTTCTTCATTC
*
14261749 TTTTTCTCTTTCTTTTTTCTTTTGTTC-T--TTC
1 TTTTTCT-TTTCTTCTTTCTTTT-TTCTTCATTC
14261780 TTTTTTCTTTTCTTC
1 -TTTTTCTTTTCTTC
14261795 AGGTGTAATT
Statistics
Matches: 92, Mismatches: 5, Indels: 21
0.78 0.04 0.18
Matches are distributed among these distances:
28 4 0.04
29 12 0.13
30 9 0.10
31 19 0.21
32 41 0.45
33 7 0.08
ACGTcount: A:0.02, C:0.19, G:0.01, T:0.78
Consensus pattern (32 bp):
TTTTTCTTTTCTTCTTTCTTTTTTCTTCATTC
Found at i:14261726 original size:23 final size:24
Alignment explanation
Indices: 14261651--14261769 Score: 74
Period size: 23 Copynumber: 5.2 Consensus size: 24
14261641 TCCTTTCAGA
*
14261651 TTTCTTTTTTCTC-TTTT--TT-T
1 TTTCTTCTTTCTCTTTTTCATTAT
* * * *
14261671 TTTCTTTTTTCTTCATTTTCTTTCT
1 TTTCTTCTTTC-TCTTTTTCATTAT
14261696 TTTCTTCTTTCT-TTTTTCATTAT
1 TTTCTTCTTTCTCTTTTTCATTAT
* * *
14261719 TTTTTTCTTTTTCTTTTTC-TTGT
1 TTTCTTCTTTCTCTTTTTCATTAT
* * *
14261742 TCTCTTCTTTTTCTCTTTC-TT-T
1 TTTCTTCTTTCTCTTTTTCATTAT
14261764 TTTCTT
1 TTTCTT
14261770 TTGTTCTTTC
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
20 11 0.13
21 2 0.02
22 10 0.12
23 39 0.48
24 9 0.11
25 11 0.13
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.78
Consensus pattern (24 bp):
TTTCTTCTTTCTCTTTTTCATTAT
Found at i:14261759 original size:54 final size:51
Alignment explanation
Indices: 14261651--14261790 Score: 153
Period size: 54 Copynumber: 2.6 Consensus size: 51
14261641 TCCTTTCAGA
14261651 TTTCTTTTTTCTCTTTTTTTT-TTCTTT-TTTCTTCATTTTCTTTCTTTTCTTC
1 TTTCTTTTTTCT-TTTTTTTTCTT-TTTCTTT-TTCATTTTCTTTCTTTTCTTC
14261703 TTTCTTTTTTCATTATTTTTTTCTTTTTCTTTTTC-TTGTTCTCTTCTTTT-TCTC
1 TTTCTTTTTTC-TT-TTTTTTTCTTTTTCTTTTTCATT-TTCT-TTCTTTTCT-TC
14261757 TTTCTTTTTTCTTTTGTTCTTTCTTTTTTCTTTT
1 TTTCTTTTTTCTTTT-TT-TTTC-TTTTTCTTTT
14261791 CTTCAGGTGT
Statistics
Matches: 78, Mismatches: 0, Indels: 17
0.82 0.00 0.18
Matches are distributed among these distances:
52 16 0.21
53 23 0.29
54 29 0.37
55 10 0.13
ACGTcount: A:0.02, C:0.18, G:0.01, T:0.79
Consensus pattern (51 bp):
TTTCTTTTTTCTTTTTTTTTCTTTTTCTTTTTCATTTTCTTTCTTTTCTTC
Found at i:14261787 original size:11 final size:11
Alignment explanation
Indices: 14261651--14261789 Score: 104
Period size: 12 Copynumber: 13.3 Consensus size: 11
14261641 TCCTTTCAGA
14261651 TTTCTTTTTTC
1 TTTCTTTTTTC
*
14261662 --TCTTTTTTT
1 TTTCTTTTTTC
14261671 TTTCTTTTTTC
1 TTTCTTTTTTC
*
14261682 -TTC-ATTTTC
1 TTTCTTTTTTC
14261691 TTTCTTTTCTTC
1 TTTCTTTT-TTC
14261703 TTTCTTTTTTC
1 TTTCTTTTTTC
14261714 ATTAT-TTTTTTC
1 -TT-TCTTTTTTC
*
14261726 -TT-TTTCTT-
1 TTTCTTTTTTC
*
14261734 TTTC-TTGTTC
1 TTTCTTTTTTC
14261744 TCTTCTTTTTCTC
1 T-TTCTTTTT-TC
14261757 TTTCTTTTTTC
1 TTTCTTTTTTC
*
14261768 --T-TTTGTTC
1 TTTCTTTTTTC
14261776 TTTCTTTTTTC
1 TTTCTTTTTTC
14261787 TTT
1 TTT
14261790 TCTTCAGGTG
Statistics
Matches: 103, Mismatches: 9, Indels: 32
0.72 0.06 0.22
Matches are distributed among these distances:
8 6 0.06
9 26 0.25
10 9 0.09
11 27 0.26
12 31 0.30
13 4 0.04
ACGTcount: A:0.02, C:0.18, G:0.01, T:0.78
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:14261789 original size:19 final size:18
Alignment explanation
Indices: 14261651--14261790 Score: 119
Period size: 19 Copynumber: 7.4 Consensus size: 18
14261641 TCCTTTCAGA
*
14261651 TTTCTTTTTTCTCTTTTTTT
1 TTTC-TTTTT-TCTTTCTTT
14261671 TTTCTTTTTTC-TTCATTTT
1 TTTCTTTTTTCTTTC--TTT
14261690 CTTTCTTTTCTTCTTTCTTT
1 -TTTCTTTT-TTCTTTCTTT
14261710 TTTCATTATTTT-TTTC-TT
1 TTTC-TT-TTTTCTTTCTTT
*
14261728 TTTC-TTTTTCTTGT-TCT
1 TTTCTTTTTTCTT-TCTTT
*
14261745 CTTCTTTTTCTCTTTCTTT
1 TTTCTTTTT-TCTTTCTTT
14261764 TTTCTTTTGTTCTTTCTTT
1 TTTCTTTT-TTCTTTCTTT
14261783 TTTCTTTT
1 TTTCTTTT
14261791 CTTCAGGTGT
Statistics
Matches: 101, Mismatches: 5, Indels: 29
0.75 0.04 0.21
Matches are distributed among these distances:
15 4 0.04
16 3 0.03
17 7 0.07
18 13 0.13
19 46 0.46
20 20 0.20
21 5 0.05
22 3 0.03
ACGTcount: A:0.02, C:0.18, G:0.01, T:0.79
Consensus pattern (18 bp):
TTTCTTTTTTCTTTCTTT
Found at i:14263263 original size:22 final size:23
Alignment explanation
Indices: 14263226--14263287 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 23
14263216 TGTATGGAAT
*
14263226 GAATGAAATAGCAAAAAAATGTGAA
1 GAATGAAA-AG-AAAAAAATGTAAA
*
14263251 GAATG-AAAGAAAAGAATGTAAA
1 GAATGAAAAGAAAAAAATGTAAA
14263273 GAATGATAAAGAAAA
1 GAATGA-AAAGAAAA
14263288 TGTATAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 16 0.48
23 2 0.06
24 10 0.30
25 5 0.15
ACGTcount: A:0.63, C:0.02, G:0.21, T:0.15
Consensus pattern (23 bp):
GAATGAAAAGAAAAAAATGTAAA
Found at i:14268246 original size:175 final size:174
Alignment explanation
Indices: 14267950--14268276 Score: 546
Period size: 175 Copynumber: 1.9 Consensus size: 174
14267940 TAAATTATAT
* * * *
14267950 TAACCCTTAACTAGAGAAAACGTTCGTCTCCCCCTTTTTCTTCTAAACCCATCTTTTTTCTCACG
1 TAACCCTTAACTAGAGAAAACGTTCGTCTCCCCCTTTTTCTCCCAAACCCATCTTCTTTCTCACA
* *
14268015 GTCAAAGGCTCATATGCTCACTAACGCCACCAGCCACCGATCATGGATGGCCTCTCTTACTTCGA
66 GCCAAAGGCTCATATGCTCACTAACGCCACCAGCCACCGATCATGGATGACCTCTCTTACTTCGA
*
14268080 TCGTTGACTACTCCTACCAGTGATTACCTTAAACCATCGTAATAC
131 T-GTCGACTACTCCTACCAGTGATTACCTTAAACCATCGTAATAC
14268125 TAACCCTTAACTAGAGAAAACGTTCGTCTCCCCCTTTTTCTCCCAAACCCATCTTCTTTCTCACA
1 TAACCCTTAACTAGAGAAAACGTTCGTCTCCCCCTTTTTCTCCCAAACCCATCTTCTTTCTCACA
* * *
14268190 GCCAAAGGCTCATATGCTCACTAACGTCACCGGCCACCGATCATGGATGACCTCTCTTGCTTCGA
66 GCCAAAGGCTCATATGCTCACTAACGCCACCAGCCACCGATCATGGATGACCTCTCTTACTTCGA
*
14268255 TGTCGACTACTCCTACCGGTGA
131 TGTCGACTACTCCTACCAGTGA
14268277 CGACCCTAAA
Statistics
Matches: 141, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
174 19 0.13
175 122 0.87
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.29
Consensus pattern (174 bp):
TAACCCTTAACTAGAGAAAACGTTCGTCTCCCCCTTTTTCTCCCAAACCCATCTTCTTTCTCACA
GCCAAAGGCTCATATGCTCACTAACGCCACCAGCCACCGATCATGGATGACCTCTCTTACTTCGA
TGTCGACTACTCCTACCAGTGATTACCTTAAACCATCGTAATAC
Found at i:14272467 original size:34 final size:35
Alignment explanation
Indices: 14272419--14272491 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
14272409 CACAGTCCTC
*
14272419 AATTTCATTCTAAACCCAAAATTCCAAAATAATTT
1 AATTACATTCTAAACCCAAAATTCCAAAATAATTT
* * * *
14272454 AATTACATT-TAAACTCTAAATTCTAAAATACTTT
1 AATTACATTCTAAACCCAAAATTCCAAAATAATTT
14272488 AATT
1 AATT
14272492 TAGGGTTTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
34 25 0.76
35 8 0.24
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.38
Consensus pattern (35 bp):
AATTACATTCTAAACCCAAAATTCCAAAATAATTT
Found at i:14272534 original size:35 final size:35
Alignment explanation
Indices: 14272488--14272564 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
14272478 AAAATACTTT
*
14272488 AATTTAGGGTTTAGAAT-GTAATTAAAGTATTTTGA
1 AATTTTGGGTTTAGAATAG-AATTAAAGTATTTTGA
* *
14272523 AATTTTGGGTTTAGAATAGAATTGAAGTGTTTTGA
1 AATTTTGGGTTTAGAATAGAATTAAAGTATTTTGA
14272558 AATTTTG
1 AATTTTG
14272565 AACATAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 37 0.97
36 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (35 bp):
AATTTTGGGTTTAGAATAGAATTAAAGTATTTTGA
Found at i:14279909 original size:31 final size:31
Alignment explanation
Indices: 14279873--14279931 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
14279863 AACTTAAAAG
*
14279873 AGTTTTGTAATACTGAAATTTAAATAATTTT
1 AGTTTTATAATACTGAAATTTAAATAATTTT
14279904 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTATAATACTGAAATTTAAATAAT
14279932 CCATACAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (31 bp):
AGTTTTATAATACTGAAATTTAAATAATTTT
Found at i:14280017 original size:21 final size:22
Alignment explanation
Indices: 14279950--14280648 Score: 701
Period size: 22 Copynumber: 33.6 Consensus size: 22
14279940 CAAATAATTT
*
14279950 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
14279972 TTTTAAAAT--A--AATCCATA
1 TTTTAAAATAAATCAATCCATA
14279990 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
14280012 -TTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
14280033 -TTTAAAAT--ATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
14280052 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
***
14280074 TTTT-AAA-AAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
14280094 -TTTAAAAT-AATC-A---ATA
1 TTTTAAAATAAATCAATCCATA
**
14280110 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
*
14280132 TTTTAAACTAAATC-ATCC--A
1 TTTTAAAATAAATCAATCCATA
**
14280151 -TTTAAAATAAAAT-TTTCCAT-
1 TTTTAAAAT-AAATCAATCCATA
14280171 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *** *
14280193 TTTTAAAA-CAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
14280214 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* ***
14280236 TTTTAAAATAATTTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
14280258 -TTT-AAA-AAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
14280277 TTTTAAAAATAAATC-ATCTATA
1 TTTT-AAAATAAATCAATCCATA
14280299 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
14280321 TTTT-AAA-AAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
14280341 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
* *
14280363 TTTT-AAATAAATTAATTCATA
1 TTTTAAAATAAATCAATCCATA
** *
14280384 TTTTAAAATAAAT-TTTTCATA
1 TTTTAAAATAAATCAATCCATA
*
14280405 TTTTAAAA-AAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
*
14280426 TTTT-AAAT-AATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
14280446 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* ***
14280468 TTTTAAAATAATTTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
14280490 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
14280512 TTTTAAAATAAATTTGTCCATA
1 TTTTAAAATAAATCAATCCATA
14280534 TTTTAAAATAAATCAAT-CATA
1 TTTTAAAATAAATCAATCCATA
***
14280555 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
14280577 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
14280599 -TTT-AAATAAATCAAT---TA
1 TTTTAAAATAAATCAATCCATA
*
14280616 TATTAAAATAAATCAAT--ATA
1 TTTTAAAATAAATCAATCCATA
14280636 TTTTAAAATAAAT
1 TTTTAAAATAAAT
14280649 TTTAAATAGA
Statistics
Matches: 566, Mismatches: 70, Indels: 84
0.79 0.10 0.12
Matches are distributed among these distances:
16 3 0.01
17 10 0.02
18 25 0.04
19 46 0.08
20 101 0.18
21 152 0.27
22 224 0.40
23 5 0.01
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:14280030 original size:43 final size:44
Alignment explanation
Indices: 14279950--14280648 Score: 701
Period size: 43 Copynumber: 16.8 Consensus size: 44
14279940 CAAATAATTT
*
14279950 TTTTAAAATAAATCAATTCATATTTTAAAAT--A--AATCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
14279990 TTTTAAAATAAATCAATCCATA-TTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
*
14280033 -TTTAAAAT--ATCAATCCATATTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
***
14280074 TTTT-AAA-AAATTTTTCCATA-TTTAAAAT-AATC-A---ATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
** *
14280110 TTTTAAAATAAAAT-TTTCCATATTTTAAACTAAATC-ATCC--A
1 TTTTAAAAT-AAATCAATCCATATTTTAAAATAAATCAATCCATA
**
14280151 -TTTAAAATAAAAT-TTTCCAT-TTTTAAAATAAATCAATCCATA
1 TTTTAAAAT-AAATCAATCCATATTTTAAAATAAATCAATCCATA
* *** *
14280193 TTTTAAAA-CAATTTTTTCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
* ***
14280236 TTTTAAAATAATTTTTTCCATA-TTT-AAA-AAATCAATCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
*
14280277 TTTTAAAAATAAATC-ATCTATATTTTAAAATAAATCAATCCATA
1 TTTT-AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
***
14280321 TTTT-AAA-AAATCAATCCATATTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
* * ** *
14280363 TTTT-AAATAAATTAATTCATATTTTAAAATAAAT-TTTTCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
* *
14280405 TTTTAAAA-AAATCAATCTATATTTT-AAAT-AATCAATCTATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
* ***
14280446 TTTTAAAATAAATCAATCCATATTTTAAAATAATTTTTTCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
***
14280490 TTTTAAAATAAATCAATCCATATTTTAAAATAAATTTGTCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
***
14280534 TTTTAAAATAAATCAAT-CATATTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
14280577 TTTTAAAATAAATCAATCCATA-TTT-AAATAAATCAAT---TA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
*
14280616 TATTAAAATAAATCAAT--ATATTTTAAAATAAAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAAT
14280649 TTTAAATAGA
Statistics
Matches: 579, Mismatches: 43, Indels: 75
0.83 0.06 0.11
Matches are distributed among these distances:
36 7 0.01
37 6 0.01
38 11 0.02
39 59 0.10
40 68 0.12
41 79 0.14
42 125 0.22
43 127 0.22
44 97 0.17
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (44 bp):
TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
Found at i:14283671 original size:59 final size:58
Alignment explanation
Indices: 14283575--14284142 Score: 592
Period size: 59 Copynumber: 10.1 Consensus size: 58
14283565 AAATGCACCA
* * * *
14283575 TTTCATCTAACTTGCATTAGTGATACCTTTCTACCAAATACACAGTTAGACATTTAACC
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAG-CATTTAACC
* * *
14283634 TTTCATCTAACTTGCATTATTGACACCTTTATGCCAAATGCATAGTTAGGCATTTAACT
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTA-GCATTTAACC
14283693 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGACATTTAACC
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAG-CATTTAACC
* *
14283752 TTTCATCTAACTTGCATTATTGGA-ACCTTTCTTCCAAATGCACAGTTAG------GCC
1 TTTCATCTAACTTGCATTATT-GACACCTTTCTGCCAAATGCACAGTTAGCATTTAACC
* *
14283804 TTTCATCTAACTTGCATTATTGGCACCTTTCTACCAAATGCACAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTA-GCATTTAACC
* * * * *
14283863 TTTCATCTAACTTTCATTATTGGCACCTTTCTTCTAAATGTACAG-T---ATTTAACC
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGCATTTAACC
* * *
14283917 TTTCATCTAACTTGCATT-TGTGTCACCTTTATGCCAAATGCACAGTTAG-----GA-C
1 TTTCATCTAACTTGCATTAT-TGACACCTTTCTGCCAAATGCACAGTTAGCATTTAACC
*
14283969 TTTCATCTAACTTGCATTATT-AGCACCTATCTGCCAAATGCACAGTTAGACATTTAACC
1 TTTCATCTAACTTGCATTATTGA-CACCTTTCTGCCAAATGCACAGTTAG-CATTTAACC
* * * * * *
14284028 TTTAATCTAACTTCCATTAGTGGCACCTTTCTACCAAATGCACAGTTAG---GT---C
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGCATTTAACC
* * * * * *
14284080 TTTCATCTAACTTGCATGATTGGCACATTTCTGCTAATTGCACAGTTAGGCTTTTAACC
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTA-GCATTTAACC
14284139 TTTC
1 TTTC
14284143 GTTTTAGAGA
Statistics
Matches: 431, Mismatches: 46, Indels: 64
0.80 0.09 0.12
Matches are distributed among these distances:
51 1 0.00
52 131 0.30
53 5 0.01
54 45 0.10
55 2 0.00
56 1 0.00
58 3 0.01
59 240 0.56
60 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (58 bp):
TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGCATTTAACC
Found at i:14283832 original size:52 final size:52
Alignment explanation
Indices: 14283750--14284130 Score: 379
Period size: 52 Copynumber: 7.0 Consensus size: 52
14283740 AGACATTTAA
* *
14283750 CCTTTCATCTAACTTGCATTATTGGAACCTTTCTTCCAAATGCACAGTTAGG
1 CCTTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGG
*
14283802 CCTTTCATCTAACTTGCATTATTGGCACCTTTCTACCAAATGCACAGTTAGG
1 CCTTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGG
* * * * *
14283854 CATTTAACCTTTCATCTAACTTTCATTATTGGCACCTTTCTTCTAAATGTACAGTATTTA-A
1 -------CCTTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAG---TTAGG
* *
14283915 CCTTTCATCTAACTTGCATT-TGTGTCACCTTTATGCCAAATGCACAGTTAGG
1 CCTTTCATCTAACTTGCATTAT-TGGCACCTTTCTGCCAAATGCACAGTTAGG
* * * *
14283967 ACTTTCATCTAACTTGCATTATTAGCACCTATCTGCCAAATGCACAGTTAGACATTTAA
1 CCTTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAG-------G
* * * *
14284026 CCTTTAATCTAACTTCCATTAGTGGCACCTTTCTACCAAATGCACAGTTAGG
1 CCTTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGG
* * * * *
14284078 TCTTTCATCTAACTTGCATGATTGGCACATTTCTGCTAATTGCACAGTTAGG
1 CCTTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGG
14284130 C
1 C
14284131 TTTTAACCTT
Statistics
Matches: 271, Mismatches: 38, Indels: 40
0.78 0.11 0.11
Matches are distributed among these distances:
51 3 0.01
52 137 0.51
53 2 0.01
54 39 0.14
59 87 0.32
62 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (52 bp):
CCTTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGG
Found at i:14284008 original size:165 final size:165
Alignment explanation
Indices: 14283633--14284133 Score: 627
Period size: 165 Copynumber: 3.0 Consensus size: 165
14283623 GACATTTAAC
* * *
14283633 CTTTCATCTAACTTGCATTATTGACACCTTTATGCCAAATGCATAGTTAGGCATTTAACTTTTCA
1 CTTTCATCTAACTTGCATTATTG-CACCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTCA
* * *
14283698 TCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGACATTTAACCTTTCATCTAAC
65 TCTAACTTCCATTATTGGCACCTTTCTACCAAATGCACAG-T--A-ATTTAACCTTTCATCTAAC
* * *
14283763 TTGCATTATTGGAACCTTTCTTCCAAATGCACAGTTAGGC
126 TTGCATTATTGGAACCTTTATGCCAAATGCACAGTTAGGA
*
14283803 CTTTCATCTAACTTGCATTATTGGCACCTTTCTACCAAATGCACAGTTAGGCATTTAACCTTTCA
1 CTTTCATCTAACTTGCATTATT-GCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTCA
* * * *
14283868 TCTAACTTTCATTATTGGCACCTTTCTTCTAAATGTACAGT-ATTTAACCTTTCATCTAACTTGC
65 TCTAACTTCCATTATTGGCACCTTTCTACCAAATGCACAGTAATTTAACCTTTCATCTAACTTGC
**
14283932 ATT-TGTGTCACCTTTATGCCAAATGCACAGTTAGGA
130 ATTAT-TGGAACCTTTATGCCAAATGCACAGTTAGGA
* * *
14283968 CTTTCATCTAACTTGCATTATTAGCACCTATCTGCCAAATGCACAGTTAGACATTTAACCTTTAA
1 CTTTCATCTAACTTGCATTATT-GCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTCA
* * **
14284033 TCTAACTTCCATTAGTGGCACCTTTCTACCAAATGCACAGTTAGGT---CTTTCATCTAACTTGC
65 TCTAACTTCCATTATTGGCACCTTTCTACCAAATGCACAGTAATTTAACCTTTCATCTAACTTGC
* * * * * *
14284095 ATGATTGGCACATTTCTGCTAATTGCACAGTTAGG-
130 ATTATTGGAACCTTTATGCCAAATGCACAGTTAGGA
14284130 CTTT
1 CTTT
14284134 TAACCTTTCG
Statistics
Matches: 295, Mismatches: 32, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
162 4 0.01
163 43 0.15
164 2 0.01
165 148 0.50
166 2 0.01
169 1 0.00
170 94 0.32
171 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (165 bp):
CTTTCATCTAACTTGCATTATTGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTCAT
CTAACTTCCATTATTGGCACCTTTCTACCAAATGCACAGTAATTTAACCTTTCATCTAACTTGCA
TTATTGGAACCTTTATGCCAAATGCACAGTTAGGA
Found at i:14284126 original size:276 final size:278
Alignment explanation
Indices: 14283626--14284142 Score: 808
Period size: 276 Copynumber: 1.8 Consensus size: 278
14283616 ACAGTTAGAC
*
14283626 ATTTAACCTTTCATCTAACTTGCATTATTGACACCTTTATGCCAAATGCATAGTTAGGCATTTAA
1 ATTTAACCTTTCATCTAACTTGCATTATTGACACCTTTATGCCAAATGCACAGTTAGG----T-A
* *
14283691 CTTTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGACATTTAACCTTTC
61 CTTTTCATCTAACTTGCATTATTGACACCTATCTGCCAAATGCACAGTTAGACATTTAACCTTTA
* * *
14283756 ATCTAACTTGCATTATTGGAACCTTTCTTCCAAATGCACAGTTAGGCCTTTCATCTAACTTGCAT
126 ATCTAACTTCCATTAGTGGAACCTTTCTACCAAATGCACAGTTAGGCCTTTCATCTAACTTGCAT
* *
14283821 TATTGGCACCTTTCTACCAAATGCACAGTTAGGCATTTAACCTTTCATCTAACTTTCATTATTGG
191 GATTGGCACATTTCTACCAAATGCACAGTTAGGCATTTAACCTTTCATCTAACTTTCATTATTGG
14283886 CACCTTTCTTCTAAATGTACAGT
256 CACCTTTCTTCTAAATGTACAGT
*
14283909 ATTTAACCTTTCATCTAACTTGCATT-TGTGTCACCTTTATGCCAAATGCACAGTTAGG-AC-TT
1 ATTTAACCTTTCATCTAACTTGCATTAT-TGACACCTTTATGCCAAATGCACAGTTAGGTACTTT
14283971 TCATCTAACTTGCATTATT-AGCACCTATCTGCCAAATGCACAGTTAGACATTTAACCTTTAATC
65 TCATCTAACTTGCATTATTGA-CACCTATCTGCCAAATGCACAGTTAGACATTTAACCTTTAATC
* *
14284035 TAACTTCCATTAGTGGCACCTTTCTACCAAATGCACAGTTAGGTCTTTCATCTAACTTGCATGAT
129 TAACTTCCATTAGTGGAACCTTTCTACCAAATGCACAGTTAGGCCTTTCATCTAACTTGCATGAT
* * * *
14284100 TGGCACATTTCTGCTAATTGCACAGTTAGGCTTTTAACCTTTC
194 TGGCACATTTCTACCAAATGCACAGTTAGGCATTTAACCTTTC
14284143 GTTTTAGAGA
Statistics
Matches: 217, Mismatches: 15, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
275 1 0.00
276 159 0.73
277 2 0.01
282 1 0.00
283 54 0.25
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.38
Consensus pattern (278 bp):
ATTTAACCTTTCATCTAACTTGCATTATTGACACCTTTATGCCAAATGCACAGTTAGGTACTTTT
CATCTAACTTGCATTATTGACACCTATCTGCCAAATGCACAGTTAGACATTTAACCTTTAATCTA
ACTTCCATTAGTGGAACCTTTCTACCAAATGCACAGTTAGGCCTTTCATCTAACTTGCATGATTG
GCACATTTCTACCAAATGCACAGTTAGGCATTTAACCTTTCATCTAACTTTCATTATTGGCACCT
TTCTTCTAAATGTACAGT
Found at i:14284136 original size:111 final size:111
Alignment explanation
Indices: 14283575--14284142 Score: 575
Period size: 111 Copynumber: 5.0 Consensus size: 111
14283565 AAATGCACCA
* * *
14283575 TTTCATCTAACTTGCATTAGTGATACCTTTCTACCAAATACACAGTTAGACATTTAACCTTTCAT
1 TTTCATCTAACTTGCATTAGTGACACCTTTCTACCAAATGCACAGTTAG----GT-A-CTTTCAT
* * * *
14283640 CTAACTTGCATTATTGACACCTTTATGCCAAATGCATAGTTAGGCATTTAACT
60 CTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGC-TTTAACC
* * *
14283693 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGACATTTAACCTTTCAT
1 TTTCATCTAACTTGCATTAGTGACACCTTTCTACCAAATGCACAGTTAG----GT-A-CTTTCAT
* *
14283758 CTAACTTGCATTATTGGAACCTTTCTTCCAAATGCACAGTTAGG------CC
60 CTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCTTTAACC
* *
14283804 TTTCATCTAACTTGCATTATTGGCACCTTTCTACCAAATGCACAGTTAGGCATTTAACCTTTCAT
1 TTTCATCTAACTTGCATTAGTGACACCTTTCTACCAAATGCACAGTTAGG----T-A-CTTTCAT
* * * *
14283869 CTAACTTTCATTATTGGCACCTTTCTTCTAAATGTACAG-TA---TTTAACC
60 CTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCTTTAACC
* * * *
14283917 TTTCATCTAACTTGCATTTGTGTCACCTTTATGCCAAATGCACAGTTAGG-ACTTTCATCTAACT
1 TTTCATCTAACTTGCATTAGTGACACCTTTCTACCAAATGCACAGTTAGGTACTTTCATCTAACT
* * *
14283981 TGCATTATTAGCACCTATCTGCCAAATGCACAGTTAGACATTTAACC
66 TGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGC-TTTAACC
* * *
14284028 TTTAATCTAACTTCCATTAGTGGCACCTTTCTACCAAATGCACAGTTAGGT-CTTTCATCTAACT
1 TTTCATCTAACTTGCATTAGTGACACCTTTCTACCAAATGCACAGTTAGGTACTTTCATCTAACT
* * * *
14284092 TGCATGATTGGCACATTTCTGCTAATTGCACAGTTAGGCTTTTAACC
66 TGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGC-TTTAACC
14284139 TTTC
1 TTTC
14284143 GTTTTAGAGA
Statistics
Matches: 392, Mismatches: 43, Indels: 37
0.83 0.09 0.08
Matches are distributed among these distances:
106 40 0.10
107 3 0.01
110 2 0.01
111 200 0.51
113 47 0.12
118 100 0.26
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (111 bp):
TTTCATCTAACTTGCATTAGTGACACCTTTCTACCAAATGCACAGTTAGGTACTTTCATCTAACT
TGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCTTTAACC
Found at i:14289716 original size:18 final size:19
Alignment explanation
Indices: 14289668--14289716 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
14289658 TTGGACCCTT
*
14289668 AGTGCATCGGTGCACTAAG
1 AGTGCATCGATGCACTAAG
14289687 AGTGCATCGATGCA-TAA-
1 AGTGCATCGATGCACTAAG
14289704 AGTGCATTCGATG
1 AGTGCA-TCGATG
14289717 TTTCAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 6 0.21
18 9 0.32
19 13 0.46
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (19 bp):
AGTGCATCGATGCACTAAG
Found at i:14289887 original size:65 final size:63
Alignment explanation
Indices: 14289688--14289889 Score: 198
Period size: 65 Copynumber: 3.1 Consensus size: 63
14289678 TGCACTAAGA
* ** *
14289688 GTGCATCGATGCATAAAGTGCATTCGATGTTTCAAAAT-AGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATAAA-TGCATTCGATGTTTCAATATAATTCAG-GTGCATCGATGCATGGTTG
* *
14289752 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCTCA-GTGCATCGGTGCATGGT
1 GTGCATCGATGCAT-AAATGCATTCGATG-TTTCAATATAAT--TCAGGTGCATCGATGCATGGT
14289815 AT-
62 -TG
* * *
14289817 ATGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTTCATCGATGCATGGATT
1 GTGCATCGATGCAT-AAATGCATTCGATGTTTCAATATAATTCA-GGTGCATCGATGCATGG-TT
14289881 G
63 G
14289882 GTGCATCG
1 GTGCATCG
14289890 GTTCATCACT
Statistics
Matches: 114, Mismatches: 13, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 47 0.41
65 58 0.51
66 1 0.01
67 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATAAATGCATTCGATGTTTCAATATAATTCAGGTGCATCGATGCATGGTTG
Found at i:14290961 original size:21 final size:21
Alignment explanation
Indices: 14290937--14290980 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
14290927 GAGCTGGAGG
* *
14290937 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
* *
14290958 AGGAGCAGCTCGTGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
14290979 AG
1 AG
14290981 CTCTCGGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.43, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Found at i:14298379 original size:19 final size:17
Alignment explanation
Indices: 14298355--14298403 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
14298345 TTGGACCCTT
*
14298355 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TAA
*
14298373 GAGTGCAACGATGCATAA
1 -AGTGCATCGATGCATAA
14298391 AGTGCATTCGATG
1 AGTGCA-TCGATG
14298404 TTTCAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 6 0.23
18 8 0.31
19 12 0.46
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (17 bp):
AGTGCATCGATGCATAA
Found at i:14298461 original size:64 final size:63
Alignment explanation
Indices: 14298375--14298584 Score: 203
Period size: 65 Copynumber: 3.3 Consensus size: 63
14298365 TGCACTAAGA
* *
14298375 GTGCAACGATGCAT-AAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAA-TGCATTCGATGTTTCAAAATATCCAGAGTGCATCGATGCATGG-TG
* ** *
14298439 GTGCATCGATGCATCAAATGCATTCGATATTTTCATAAA-ATCCTCAGTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGAT-GTTTCA-AAATATCCAGAGTGCATCGATGCATGGT-
*
14298503 T
63 G
* ** *
14298504 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAAT-ATCCA-GAGTGCATCGATGCATGG--
14298567 TG
62 TG
*
14298569 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
14298585 CTCTAAAAAA
Statistics
Matches: 119, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 42 0.35
65 68 0.57
66 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATATCCAGAGTGCATCGATGCATGGTG
Found at i:14301279 original size:26 final size:26
Alignment explanation
Indices: 14301250--14301304 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
14301240 ACTTAGTGCA
*
14301250 TATGGTGGGCACGACCTTATGAGTAT
1 TATGGTGGGCACAACCTTATGAGTAT
*
14301276 TATGGTGGGCACAACCTTATGTGTAT
1 TATGGTGGGCACAACCTTATGAGTAT
14301302 TAT
1 TAT
14301305 CACTTCAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.35
Consensus pattern (26 bp):
TATGGTGGGCACAACCTTATGAGTAT
Found at i:14305085 original size:18 final size:18
Alignment explanation
Indices: 14305062--14305096 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
14305052 TGAATGCCAA
14305062 AAAATCATTTTGTGACAG
1 AAAATCATTTTGTGACAG
14305080 AAAATCATTTTGTGACA
1 AAAATCATTTTGTGACA
14305097 TTCTAACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (18 bp):
AAAATCATTTTGTGACAG
Found at i:14305339 original size:22 final size:22
Alignment explanation
Indices: 14305311--14305363 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
14305301 ACTATAATAT
14305311 ATATGCATTTTATTTGCAAATC
1 ATATGCATTTTATTTGCAAATC
*
14305333 ATATGCATTTTATTTGCATATC
1 ATATGCATTTTATTTGCAAATC
14305355 ATATG-ATTT
1 ATATGCATTT
14305364 AGTTGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 4 0.13
22 26 0.87
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.49
Consensus pattern (22 bp):
ATATGCATTTTATTTGCAAATC
Found at i:14306358 original size:39 final size:39
Alignment explanation
Indices: 14306297--14306372 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
14306287 CTGTACACCC
* *
14306297 AGTAAGTACTTACCCTGTGCACAAAGAAGAGGAGCCTGT
1 AGTAAGGACTTACCCTGAGCACAAAGAAGAGGAGCCTGT
* **
14306336 AGTAAGGACTTACCTTGAGCACAAAGCCGAGGAGCCT
1 AGTAAGGACTTACCCTGAGCACAAAGAAGAGGAGCCT
14306373 ACGGAAAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.18
Consensus pattern (39 bp):
AGTAAGGACTTACCCTGAGCACAAAGAAGAGGAGCCTGT
Found at i:14306413 original size:44 final size:44
Alignment explanation
Indices: 14306337--14306492 Score: 138
Period size: 44 Copynumber: 3.5 Consensus size: 44
14306327 GGAGCCTGTA
* * *
14306337 GTAAGGACTTA-CCTTGAGCACAAAGCCGAGGAGCCTACGGAAAGCT
1 GTAAGGTCTTACCCTT--GCACATAGCAGAGGAGCCTACGGAAA-CT
* *
14306383 GTAA-GTCTTACCCTTGCACATAGCATAGGAGCCTACGGAAACG
1 GTAAGGTCTTACCCTTGCACATAGCAGAGGAGCCTACGGAAACT
* * * * * * *
14306426 GTAAGGTCATACCCTGGCAAATAGTAGAGGAACCTTCAGAAA-T
1 GTAAGGTCTTACCCTTGCACATAGCAGAGGAGCCTACGGAAACT
*
14306469 GGTAAGGTCTTACCCTTGAACATA
1 -GTAAGGTCTTACCCTTGCACATA
14306493 ACAAATGAGC
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
43 5 0.06
44 71 0.80
45 5 0.06
46 8 0.09
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (44 bp):
GTAAGGTCTTACCCTTGCACATAGCAGAGGAGCCTACGGAAACT
Found at i:14312252 original size:39 final size:39
Alignment explanation
Indices: 14312198--14312273 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
14312188 CTGTACACCT
*
14312198 AGTAAGGACTTACCCTATGCACAAAGTAGAGGAGCCTAC
1 AGTAAGGACTTACCCTAAGCACAAAGTAGAGGAGCCTAC
* * *
14312237 AGTAAGGACTTACCCTAAGTACAATGTCGAGGAGCCT
1 AGTAAGGACTTACCCTAAGCACAAAGTAGAGGAGCCT
14312274 GCAGAAAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (39 bp):
AGTAAGGACTTACCCTAAGCACAAAGTAGAGGAGCCTAC
Found at i:14312338 original size:44 final size:43
Alignment explanation
Indices: 14312266--14312414 Score: 199
Period size: 44 Copynumber: 3.4 Consensus size: 43
14312256 TACAATGTCG
14312266 AGGAGCCTGCAGAAAGTTGTAAGGTCTTACCCTTGCACATAGCAA
1 AGGAGCCTGCAGAAA--TGTAAGGTCTTACCCTTGCACATAGCAA
* * *
14312311 AGGAGCCTGCGGAAATGATAAGGTCTTACCCTGGCACATAGCAG
1 AGGAGCCTGCAGAAATG-TAAGGTCTTACCCTTGCACATAGCAA
* * *
14312355 AGAAGCCTTCAGAAGTGGTAAGGTCTTACCCTTGCACATAGCAA
1 AGGAGCCTGCAGAAAT-GTAAGGTCTTACCCTTGCACATAGCAA
*
14312399 AGGAGCCTTCAGAAAT
1 AGGAGCCTGCAGAAAT
14312415 TTACTCTAAC
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.02
44 74 0.81
45 15 0.16
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (43 bp):
AGGAGCCTGCAGAAATGTAAGGTCTTACCCTTGCACATAGCAA
Found at i:14313170 original size:20 final size:20
Alignment explanation
Indices: 14313141--14313178 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14313131 TTTCAAAGTG
14313141 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
14313161 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
14313179 TAATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:14313230 original size:19 final size:20
Alignment explanation
Indices: 14313206--14313258 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
14313196 AATGCATTTT
*
14313206 ATGCATCGATGCAC-ATACC
1 ATGCATCGATGCACAAGACC
14313225 ATGCATCGATGCACAAGACC
1 ATGCATCGATGCACAAGACC
*
14313245 ATACATCGATGCAC
1 ATGCATCGATGCAC
14313259 TCAGGCTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (20 bp):
ATGCATCGATGCACAAGACC
Found at i:14319095 original size:24 final size:24
Alignment explanation
Indices: 14319068--14319148 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
14319058 ACACTTAACA
14319068 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCATCCCTTTGAAT
* *
14319092 GTGCATCGATTCAT-CATGTTG-A-
1 GTGCATCGATGCATCCCT-TTGAAT
*
14319114 -TGCACCGATGCA-CGCC-TTGAAT
1 GTGCATCGATGCATC-CCTTTGAAT
14319136 GTGCATCGATGCA
1 GTGCATCGATGCA
14319149 CATGGTCATG
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
20 3 0.07
21 11 0.24
22 1 0.02
23 14 0.31
24 16 0.36
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (24 bp):
GTGCATCGATGCATCCCTTTGAAT
Found at i:14319134 original size:44 final size:44
Alignment explanation
Indices: 14319069--14319171 Score: 138
Period size: 44 Copynumber: 2.3 Consensus size: 44
14319059 CACTTAACAG
* * *
14319069 TGCATCGATGCATCCCTTTGAATGTGCATCGATTCATCATGTTGA
1 TGCATCGATGCATCCCTTTGAATGTGCATCGATGCA-CATGGTCA
*
14319114 TGCACCGATGCA-CGCC-TTGAATGTGCATCGATGCACATGGTCA
1 TGCATCGATGCATC-CCTTTGAATGTGCATCGATGCACATGGTCA
14319157 TGCATCGATGCATCC
1 TGCATCGATGCATCC
14319172 GTCGGGTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
43 18 0.35
44 20 0.39
45 13 0.25
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (44 bp):
TGCATCGATGCATCCCTTTGAATGTGCATCGATGCACATGGTCA
Found at i:14321897 original size:20 final size:20
Alignment explanation
Indices: 14321868--14321905 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14321858 TTTCAAAGTG
14321868 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
14321888 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
14321906 TAATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:14321957 original size:19 final size:20
Alignment explanation
Indices: 14321933--14321985 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
14321923 AATGCATTTT
*
14321933 ATGCATCGATGCAC-ATACC
1 ATGCATCGATGCACAAGACC
14321952 ATGCATCGATGCACAAGACC
1 ATGCATCGATGCACAAGACC
*
14321972 ATACATCGATGCAC
1 ATGCATCGATGCAC
14321986 TCAGGCTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (20 bp):
ATGCATCGATGCACAAGACC
Found at i:14324259 original size:17 final size:16
Alignment explanation
Indices: 14324222--14324260 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
14324212 AAGATTACTC
14324222 AAATAAAATATAAATA
1 AAATAAAATATAAATA
* *
14324238 CAATAAAATGTCAAATA
1 AAATAAAATAT-AAATA
14324255 AAATAA
1 AAATAA
14324261 CGATAATGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (16 bp):
AAATAAAATATAAATA
Found at i:14324398 original size:7 final size:7
Alignment explanation
Indices: 14324386--14324419 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
14324376 GAATGTAGGA
14324386 AAATTAT
1 AAATTAT
14324393 AAATTAT
1 AAATTAT
14324400 AAATTAT
1 AAATTAT
14324407 AAATTAT
1 AAATTAT
14324414 AAATTA
1 AAATTA
14324420 AAAAATATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAATTAT
Found at i:14328559 original size:3 final size:3
Alignment explanation
Indices: 14328551--14328622 Score: 110
Period size: 3 Copynumber: 24.0 Consensus size: 3
14328541 TAGTTTTCTT
*
14328551 TTA TTA TTA TTA TTA TTA TTA TACA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
*
14328597 TTA TTA TTA TTA TTA -TA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
14328623 ATTAAATAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.03
3 59 0.94
4 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:14329985 original size:16 final size:16
Alignment explanation
Indices: 14329939--14329997 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
14329929 TATTTTGCAA
*
14329939 TTTAATATTATTGT-T
1 TTTAATATTATTATAT
*
14329954 TTTAA-CTTATTATAT
1 TTTAATATTATTATAT
14329969 TTTAATCATTATT-TAT
1 TTTAAT-ATTATTATAT
14329985 TTTCAATATTATT
1 TTT-AATATTATT
14329998 TTGTTATTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 6 0.16
15 11 0.30
16 12 0.32
17 8 0.22
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (16 bp):
TTTAATATTATTATAT
Found at i:14330024 original size:20 final size:21
Alignment explanation
Indices: 14329991--14330062 Score: 78
Period size: 20 Copynumber: 3.4 Consensus size: 21
14329981 TTATTTTCAA
*
14329991 TATTATTTT-GTTATTACTTT
1 TATTATTTTAATTATTACTTT
*
14330011 TA-TATTTTAATTATTGCTTTAAT
1 TATTATTTTAATTATTAC-TT--T
14330034 TATTATTTTAATTATTA-TTT
1 TATTATTTTAATTATTACTTT
14330054 TATTATTTT
1 TATTATTTT
14330063 TATCTTAGTC
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
19 6 0.14
20 18 0.41
21 2 0.05
22 2 0.05
23 3 0.07
24 13 0.30
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (21 bp):
TATTATTTTAATTATTACTTT
Found at i:14330033 original size:12 final size:12
Alignment explanation
Indices: 14330016--14330060 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
14330006 ACTTTTATAT
*
14330016 TTTAATTATTGC
1 TTTAATTATTAC
*
14330028 TTTAATTATTAT
1 TTTAATTATTAC
14330040 TTTAATTATTA-
1 TTTAATTATTAC
*
14330051 TTTTATTATT
1 TTTAATTATT
14330061 TTTATCTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTAATTATTAC
Found at i:14330040 original size:15 final size:13
Alignment explanation
Indices: 14329945--14330054 Score: 55
Period size: 12 Copynumber: 7.8 Consensus size: 13
14329935 GCAATTTAAT
*
14329945 ATTATTGTTTTTA
1 ATTATTATTTTTA
14329958 ACTTATTATATTTTAA
1 A-TTATTAT-TTTT-A
*
14329974 TCATTATTTATTTTCA
1 --ATTA-TTATTTTTA
*
14329990 A-TATTATTTTGTT
1 ATTATTATTTT-TA
14330003 ATTACTTTTATATTTTA
1 ATTA---TTAT-TTTTA
**
14330020 ATTATT-GCTTTA
1 ATTATTATTTTTA
14330032 ATTATTA-TTTTA
1 ATTATTATTTTTA
14330044 ATTATTATTTT
1 ATTATTATTTT
14330055 ATTATTTTTA
Statistics
Matches: 75, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
12 28 0.37
13 7 0.09
14 11 0.15
15 4 0.05
16 2 0.03
17 15 0.20
18 8 0.11
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (13 bp):
ATTATTATTTTTA
Found at i:14330055 original size:24 final size:23
Alignment explanation
Indices: 14329991--14330060 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 23
14329981 TTATTTTCAA
*
14329991 TATTATTTT-GTTATTAC-TT-T
1 TATTATTTTAATTATTACTTTAT
*
14330011 TA-TATTTTAATTATTGCTTTAAT
1 TATTATTTTAATTATTACTTT-AT
*
14330034 TATTATTTTAATTATTATTTTAT
1 TATTATTTTAATTATTACTTTAT
14330057 TATT
1 TATT
14330061 TTTATCTTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 6 0.15
20 8 0.20
21 2 0.05
23 9 0.22
24 16 0.39
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (23 bp):
TATTATTTTAATTATTACTTTAT
Found at i:14330084 original size:2 final size:2
Alignment explanation
Indices: 14330077--14330124 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
14330067 TTAGTCTTAA
14330077 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14330119 AT AT AT
1 AT AT AT
14330125 TTGTTTAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14330479 original size:148 final size:149
Alignment explanation
Indices: 14330137--14330532 Score: 460
Period size: 148 Copynumber: 2.6 Consensus size: 149
14330127 GTTTAAATAA
* * * * * * *
14330137 TAATATTTATTTATTTTTGATATCAAAGAAAAGGACAGTCTTAAAGCAACTAGATGTCCTATTCT
1 TAATATTTATTTATTTTTAATAT-TAAGAAATGGACTGTCTTAAAGCACCTAGAAGTCCTTTTCT
*
14330202 GATATTTTAAATAAATAAATATCTTACTTATAAAAATTAGAAATACATATTGTTTTATTTAAATT
65 GATATTTTAAATAAATAAATATCTTA-TTATAAAAATTAGAAATACATA-T-ATTTATTTAAATT
14330267 ATTTCTTAGAAAAAAATCATATTT
127 ATTTCTTA-AAAAAAATCATATTT
* ** *
14330291 TAATATTTATATATTTTTAATATTAAGAAATGGGTTGTCTTAAAGCACCTAGAAGTCATTTTCTG
1 TAATATTTATTTATTTTTAATATTAAGAAATGGACTGTCTTAAAGCACCTAGAAGTCCTTTTCTG
* * * * * *
14330356 ATATTCTTAAATAAATAAATATCATATTTTCATAAATTATATATAC-TA-ATTTATTTTAATTAT
66 ATATT-TTAAATAAATAAATATCTTATTAT-AAAAATTAGAAATACATATATTTATTTAAATTAT
* * * *
14330419 TT-TT-ATAGAAAT-GTTTTAT
129 TTCTTAAAAAAAATCATATT-T
14330438 TAATATTTATTTATTTTTTAATATTAAGAAATGGACTGTCTTAAAGCACCTAGAAGTCCTTTTCT
1 TAATATTTATTTA-TTTTTAATATTAAGAAATGGACTGTCTTAAAGCACCTAGAAGTCCTTTTCT
*
14330503 GATATTTCTAAGTAAATAAATATCTTATTA
65 GATATTT-TAAATAAATAAATATCTTATTA
14330533 ATATATTTTC
Statistics
Matches: 208, Mismatches: 29, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
146 3 0.01
147 20 0.10
148 73 0.35
149 2 0.01
150 15 0.07
153 43 0.21
154 52 0.25
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (149 bp):
TAATATTTATTTATTTTTAATATTAAGAAATGGACTGTCTTAAAGCACCTAGAAGTCCTTTTCTG
ATATTTTAAATAAATAAATATCTTATTATAAAAATTAGAAATACATATATTTATTTAAATTATTT
CTTAAAAAAAATCATATTT
Found at i:14330591 original size:148 final size:147
Alignment explanation
Indices: 14330290--14330568 Score: 336
Period size: 148 Copynumber: 1.9 Consensus size: 147
14330280 AAATCATATT
**
14330290 TTAATATTTATATATTTTTAATATTAAGAAATGGGTTGTCTTAAAGCACCTAGAAGTCATTTTCT
1 TTAATATTTATATATTTTTAATATTAAGAAATGGACTGTCTTAAAGCACCTAGAAGTCATTTTCT
* * * * * * * *
14330355 GATATTCTTAAATAAATAAATATCATATTTTCATAAATTATATATACTAATTTATTTTAATTATT
66 GATATTCTTAAATAAATAAATATCATATATTAATAAATTATATATACAAAATTATATAAATAAAT
* * *
14330420 TTTATAGAAATGTTTTA
131 TTGAAAGAAATGTTTAA
* *
14330437 TTAATATTTATTTATTTTTTAATATTAAGAAATGGACTGTCTTAAAGCACCTAGAAGTCCTTTTC
1 TTAATATTTATATA-TTTTTAATATTAAGAAATGGACTGTCTTAAAGCACCTAGAAGTCATTTTC
* * *
14330502 TGATATT-TCTAAGTAAATAAATATC-T-TATTAATATATT-T-TCT-CAAAATTATATAAATAA
65 TGATATTCT-TAAATAAATAAATATCATATATTAATAAATTATATATACAAAATTATATAAATAA
14330561 ATTTGAAA
129 ATTTGAAA
14330569 TAACATGATT
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
143 17 0.15
144 2 0.02
145 1 0.01
146 9 0.08
147 15 0.13
148 69 0.61
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.46
Consensus pattern (147 bp):
TTAATATTTATATATTTTTAATATTAAGAAATGGACTGTCTTAAAGCACCTAGAAGTCATTTTCT
GATATTCTTAAATAAATAAATATCATATATTAATAAATTATATATACAAAATTATATAAATAAAT
TTGAAAGAAATGTTTAA
Found at i:14336703 original size:15 final size:16
Alignment explanation
Indices: 14336683--14336712 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14336673 AAAATGAATT
14336683 ACATTTTCT-GAAAAA
1 ACATTTTCTAGAAAAA
14336698 ACATTTTCTAGAAAA
1 ACATTTTCTAGAAAA
14336713 CGTTTTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (16 bp):
ACATTTTCTAGAAAAA
Found at i:14337015 original size:23 final size:23
Alignment explanation
Indices: 14336966--14337016 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
14336956 GTGTTATATT
**
14336966 ATATTTTAAAAATATTAATTACT
1 ATATTTTAAAAATATTAATTAAA
* * *
14336989 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
14337012 ATATT
1 ATATT
14337017 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:14337068 original size:19 final size:19
Alignment explanation
Indices: 14337004--14337082 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 19
14336994 TTAAATATCT
14337004 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
* *
14337023 TTATT-ATATTAATATTAA
1 TTATTAATAATATTATTAA
* * *
14337041 ATATAAATAATATTATTCA
1 TTATTAATAATATTATTAA
*
14337060 TTATTAATAAT-TTAATAA
1 TTATTAATAATATTATTAA
14337078 -TATTA
1 TTATTA
14337083 TTTCTATAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
17 5 0.11
18 10 0.21
19 32 0.68
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:14337122 original size:27 final size:27
Alignment explanation
Indices: 14337043--14337122 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
14337033 AATATTAAAT
14337043 ATAAATAATATTATTCATTAT-TAA-TA
1 ATAAATAATATTATT-ATTATATAATTA
* *
14337069 ATTTAATAATATTATT-TCTATAAAATTA
1 A-TAAATAATATTATTAT-TATATAATTA
*
14337097 ATAAATAATATTATTATAATATAATT
1 ATAAATAATATTATTATTATATAATT
14337123 TATTATTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 35 0.80
28 4 0.09
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (27 bp):
ATAAATAATATTATTATTATATAATTA
Found at i:14337125 original size:15 final size:15
Alignment explanation
Indices: 14337022--14337128 Score: 61
Period size: 16 Copynumber: 7.5 Consensus size: 15
14337012 ATATTATTAG
*
14337022 ATTATTAT-ATTAAT
1 ATTATTATAAATAAT
*
14337036 ATTAAATATAAATAAT
1 ATT-ATTATAAATAAT
* *
14337052 ATTATTCATTATTAAT
1 ATTATT-ATAAATAAT
14337068 A--ATT-T-AATAAT
1 ATTATTATAAATAAT
** *
14337079 ATTATT-TCTATAAA
1 ATTATTATAAATAAT
14337093 ATTA--ATAAATAAT
1 ATTATTATAAATAAT
14337106 ATTATTATAATATAAT
1 ATTATTATAA-ATAAT
14337122 -TTATTAT
1 ATTATTAT
14337129 TTTATCATAA
Statistics
Matches: 72, Mismatches: 11, Indels: 19
0.71 0.11 0.19
Matches are distributed among these distances:
11 6 0.08
12 1 0.01
13 13 0.18
14 14 0.19
15 17 0.24
16 21 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATTATAAATAAT
Found at i:14337182 original size:22 final size:22
Alignment explanation
Indices: 14337087--14337178 Score: 55
Period size: 22 Copynumber: 4.2 Consensus size: 22
14337077 ATATTATTTC
* *
14337087 TATAAAATTAATAAATAATATTA
1 TATAATATTATTAAA-AATATTA
* * * *
14337110 TTATAATATAATT--TATTATTT
1 -TATAATATTATTAAAAATATTA
* *
14337131 TATCATAATATTAAAAATATTA
1 TATAATATTATTAAAAATATTA
* *
14337153 TATTATATTATTAAAAATGTTA
1 TATAATATTATTAAAAATATTA
14337175 -ATAA
1 TATAA
14337179 ATATATTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 7
0.68 0.22 0.10
Matches are distributed among these distances:
20 9 0.18
21 8 0.16
22 24 0.48
24 9 0.18
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (22 bp):
TATAATATTATTAAAAATATTA
Found at i:14338454 original size:3 final size:3
Alignment explanation
Indices: 14338446--14338474 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14338436 AAAGAATAAT
14338446 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14338475 GTACTTCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14340044 original size:12 final size:13
Alignment explanation
Indices: 14340018--14340048 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
14340008 TAATGCATGT
14340018 ATAAATGCTTAAA
1 ATAAATGCTTAAA
14340031 ATAAATGCTT-AA
1 ATAAATGCTTAAA
14340043 ATAAAT
1 ATAAAT
14340049 ACATGCCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (13 bp):
ATAAATGCTTAAA
Found at i:14343704 original size:21 final size:21
Alignment explanation
Indices: 14343680--14343774 Score: 140
Period size: 21 Copynumber: 4.6 Consensus size: 21
14343670 GTGCATAACT
14343680 TAAACCCTAAACTATAAACCC
1 TAAACCCTAAACTATAAACCC
14343701 TAAA-CCTAAACTATAAACCC
1 TAAACCCTAAACTATAAACCC
*
14343721 TAAACCCTAAAC-ATTAAACCT
1 TAAACCCTAAACTA-TAAACCC
* *
14343742 TAAACCCTAAAATATAGACCC
1 TAAACCCTAAACTATAAACCC
14343763 TAAACCCTAAAC
1 TAAACCCTAAAC
14343775 CCTATCACAT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
20 21 0.32
21 44 0.67
22 1 0.02
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.20
Consensus pattern (21 bp):
TAAACCCTAAACTATAAACCC
Found at i:14343724 original size:7 final size:7
Alignment explanation
Indices: 14343680--14343778 Score: 92
Period size: 7 Copynumber: 14.3 Consensus size: 7
14343670 GTGCATAACT
14343680 TAAACCC
1 TAAACCC
**
14343687 TAAACTA
1 TAAACCC
14343694 TAAACCC
1 TAAACCC
14343701 TAAA-CC
1 TAAACCC
**
14343707 TAAACTA
1 TAAACCC
14343714 TAAACCC
1 TAAACCC
14343721 TAAACCC
1 TAAACCC
**
14343728 TAAACAT
1 TAAACCC
*
14343735 TAAACCT
1 TAAACCC
14343742 TAAACCC
1 TAAACCC
***
14343749 TAAAATA
1 TAAACCC
*
14343756 TAGACCC
1 TAAACCC
14343763 TAAACCC
1 TAAACCC
14343770 TAAACCC
1 TAAACCC
14343777 TA
1 TA
14343779 TCACATAATT
Statistics
Matches: 71, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
6 6 0.08
7 65 0.92
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:14343875 original size:14 final size:14
Alignment explanation
Indices: 14343856--14343885 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14343846 TATAATTATC
*
14343856 AATAATGTATTTTT
1 AATAATGTAATTTT
14343870 AATAATGTAATTTT
1 AATAATGTAATTTT
14343884 AA
1 AA
14343886 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:14357011 original size:28 final size:26
Alignment explanation
Indices: 14356960--14357018 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 26
14356950 ACTCAAATTC
*
14356960 AAAAATATTTTATATATAATTAATAT
1 AAAAATATTTTATATATAACTAATAT
*
14356986 AAAAATATTATATATATATAACTAATGT
1 AAAAATATT-T-TATATATAACTAATAT
14357014 AAAAA
1 AAAAA
14357019 ATATAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 9 0.31
27 1 0.03
28 19 0.66
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (26 bp):
AAAAATATTTTATATATAACTAATAT
Found at i:14357242 original size:2 final size:2
Alignment explanation
Indices: 14357235--14357269 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14357225 TAATCAAAAC
14357235 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14357270 ATTAAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14364750 original size:27 final size:27
Alignment explanation
Indices: 14364720--14364773 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
14364710 CAAATCCTCT
14364720 TGATAGGTAACCCCACTTTGTTTCACA
1 TGATAGGTAACCCCACTTTGTTTCACA
*
14364747 TGATAGGTAATCCCACTTTGTTTCACA
1 TGATAGGTAACCCCACTTTGTTTCACA
14364774 CTTATACACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (27 bp):
TGATAGGTAACCCCACTTTGTTTCACA
Found at i:14366207 original size:3 final size:3
Alignment explanation
Indices: 14366192--14366253 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
14366182 CCATTCATTT
*
14366192 TTA TTA TT- CTA TTA TTA TT- TTA TTA TTA -TA TTA TTTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA
*
14366236 TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA
14366254 ATAAAAAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
2 5 0.10
3 39 0.78
4 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:14366208 original size:11 final size:10
Alignment explanation
Indices: 14366188--14366252 Score: 71
Period size: 11 Copynumber: 6.3 Consensus size: 10
14366178 TTGTCCATTC
14366188 ATTT-TTATT
1 ATTTATTATT
14366197 ATTCTATTATT
1 ATT-TATTATT
14366208 ATTTTATTATT
1 A-TTTATTATT
14366219 ATATTATTTATT
1 AT-TTA-TTATT
14366231 ATTTATTATT
1 ATTTATTATT
*
14366241 A-TTATTACT
1 ATTTATTATT
14366250 ATT
1 ATT
14366253 AATAAAAAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
9 11 0.22
10 9 0.18
11 20 0.41
12 9 0.18
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTATTATT
Found at i:14366214 original size:19 final size:18
Alignment explanation
Indices: 14366190--14366243 Score: 78
Period size: 16 Copynumber: 3.1 Consensus size: 18
14366180 GTCCATTCAT
14366190 TTTTATTATTCTATTATTA
1 TTTTATTATT-TATTATTA
14366209 TTTTATTA-TTA-TATTA
1 TTTTATTATTTATTATTA
14366225 -TTTATTATTTATTATTA
1 TTTTATTATTTATTATTA
14366242 TT
1 TT
14366244 ATTACTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 7 0.22
16 8 0.25
17 7 0.22
18 2 0.06
19 8 0.25
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATTATTTATTATTA
Found at i:14366220 original size:22 final size:24
Alignment explanation
Indices: 14366192--14366253 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 24
14366182 CCATTCATTT
14366192 TTATTATTCTATTATTATTTTATTA
1 TTATTATTCTATTATTA-TTTATTA
*
14366217 TTA-TATTAT-TTATTATTTATTA
1 TTATTATTCTATTATTATTTATTA
14366239 TTATTATTACTATTA
1 TTATTATT-CTATTA
14366254 ATAAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 10 0.31
23 10 0.31
24 6 0.19
25 6 0.19
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (24 bp):
TTATTATTCTATTATTATTTATTA
Found at i:14366233 original size:23 final size:23
Alignment explanation
Indices: 14366192--14366247 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
14366182 CCATTCATTT
*
14366192 TTATTATTCTATTATTATTTTATTA
1 TTATTATTAT-TTATTA-TTTATTA
14366217 TTA-TATTATTTATTATTTATTA
1 TTATTATTATTTATTATTTATTA
14366239 TTATTATTA
1 TTATTATTA
14366248 CTATTAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 10 0.34
23 11 0.38
24 5 0.17
25 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (23 bp):
TTATTATTATTTATTATTTATTA
Found at i:14366252 original size:19 final size:20
Alignment explanation
Indices: 14366191--14366247 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 20
14366181 TCCATTCATT
*
14366191 TTTATTATTCTATTATTAT-
1 TTTATTATTATATTATTATA
14366210 TTTATTATTATATTATTTATTA
1 TTTATTATTATATTA-TTA-TA
14366232 TTTATTATTATTATTA
1 TTTATTATTA-TATTA
14366248 CTATTAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 14 0.42
20 3 0.09
21 1 0.03
22 10 0.30
23 5 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTATTATTATATTATTATA
Found at i:14367523 original size:32 final size:33
Alignment explanation
Indices: 14367477--14367538 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
14367467 TCAAAATTTT
14367477 TATATATACTTATTATTTTCA-TAATATTTATA
1 TATATATACTTATTATTTTCATTAATATTTATA
*
14367509 TATATATA-TATATTATTTTTATTAATATTT
1 TATATATACT-TATTATTTTCATTAATATTT
14367539 TATTTTCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 1 0.04
32 18 0.67
33 8 0.30
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (33 bp):
TATATATACTTATTATTTTCATTAATATTTATA
Found at i:14367536 original size:17 final size:16
Alignment explanation
Indices: 14367472--14367544 Score: 58
Period size: 17 Copynumber: 4.3 Consensus size: 16
14367462 TCTTTTCAAA
14367472 ATTTTTATATATACTTATT
1 ATTTTTATA-ATA--TATT
*
14367491 ATTTTCATAATAT-TT
1 ATTTTTATAATATATT
* *
14367506 ATATATATATATATATT
1 ATTTTTATA-ATATATT
*
14367523 ATTTTTATTAATATTTT
1 ATTTTTA-TAATATATT
14367540 ATTTT
1 ATTTT
14367545 CAAGTATTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
15 8 0.18
16 5 0.11
17 18 0.41
18 5 0.11
19 8 0.18
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTTATAATATATT
Found at i:14373863 original size:12 final size:12
Alignment explanation
Indices: 14373846--14373876 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14373836 CTTCATTAAA
14373846 AAGCTTCTTTTC
1 AAGCTTCTTTTC
*
14373858 AAGCTTCTTTTT
1 AAGCTTCTTTTC
14373870 AAGCTTC
1 AAGCTTC
14373877 CTCTGCTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.23, G:0.10, T:0.48
Consensus pattern (12 bp):
AAGCTTCTTTTC
Found at i:14376288 original size:22 final size:22
Alignment explanation
Indices: 14376262--14376316 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
14376252 ATCTACACTT
*
14376262 TTCAAAGATGATAGATTTTCAC
1 TTCAAAGATGATAGATTCTCAC
**
14376284 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCAC
14376306 TTCAAAGATGA
1 TTCAAAGATGA
14376317 AAACTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCAC
Found at i:14376865 original size:113 final size:112
Alignment explanation
Indices: 14376696--14377238 Score: 610
Period size: 113 Copynumber: 4.7 Consensus size: 112
14376686 ATTGCCAGGT
*
14376696 AGAGTTCATAATGAGAAGCACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * *
14376761 TCAACCTTTTACTCGAATTC-ATCACTCGATTGATCATC-TTTGACAGA
66 TCAACCTTTTGCTCG-ATTCTATCACTCGATTGATCAACATTT-CCAGA
* *
14376808 TAGAGTTCATAATGAGAAGAACTCAACTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
1 -AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* *
14376873 TTCAACCTTTTGCTCAAATTC-ATCACTCGATGGATCAACATTTCCAGA
65 TTCAACCTTTTGCTC-GATTCTATCACTCGATTGATCAACATTTCCAGA
* *
14376921 AGTGTTCATAATGGGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * *
14376985 TCAACCTTTTGCTCGATTCTATCCCAGATGGAGATAAATCAGCACCAACATTTCTAGA
66 TCAACCTTTTGCTCGATTCTAT--CA-CT--CGAT---T--G-ATCAACATTTCCAGA
* *
14377043 AGGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACATG
1 A-GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* * * *
14377108 TTCAACCTTTTGCTTGATTCTATCACAGAAGGAAATAGATCAGCATCAATATTTCCAGA
65 TTCAACCTTTTGCTCGATTCTATCAC---------TCGAT-TG-ATCAACATTTCCAGA
* *
14377167 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAATTCATAATGAGAAGAATTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
14377231 TCAACCTT
66 TCAACCTT
14377239 GCCTTAATTC
Statistics
Matches: 372, Mismatches: 33, Indels: 41
0.83 0.07 0.09
Matches are distributed among these distances:
110 4 0.01
111 48 0.13
112 28 0.08
113 101 0.27
114 4 0.01
116 3 0.01
121 1 0.00
122 50 0.13
123 61 0.16
124 67 0.18
128 4 0.01
130 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (112 bp):
AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
TCAACCTTTTGCTCGATTCTATCACTCGATTGATCAACATTTCCAGA
Found at i:14377064 original size:123 final size:123
Alignment explanation
Indices: 14376908--14377238 Score: 513
Period size: 124 Copynumber: 2.7 Consensus size: 123
14376898 CTCGATGGAT
* *
14376908 CAACATTTCCAGAAGTGTTCATAATGGGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAAT
1 CAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * *
14376972 GAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCCCAGATGGAGATAAATCAGCAC
66 GAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCACAGAAGGAAATAAATCAGCAC
* *
14377030 CAACATTTCTAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAA
1 CAACATTTCCAGAA-GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* * * *
14377095 TGAGAAGAACATGTTCAACCTTTTGCTTGATTCTATCACAGAAGGAAATAGATCAGCAT
65 TGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCACAGAAGGAAATAAATCAGCAC
* *
14377154 CAATATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAATTCATAAT
1 CAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
*
14377218 GAGAAGAATTTGTTCAACCTT
66 GAGAAGAACTTGTTCAACCTT
14377239 GCCTTAATTC
Statistics
Matches: 190, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
122 47 0.25
123 61 0.32
124 82 0.43
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (123 bp):
CAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCACAGAAGGAAATAAATCAGCAC
Found at i:14377100 original size:235 final size:226
Alignment explanation
Indices: 14376696--14377238 Score: 625
Period size: 235 Copynumber: 2.3 Consensus size: 226
14376686 ATTGCCAGGT
*
14376696 AGAGTTCATAATGAGAAGCACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * *
14376761 TCAACCTTTTACTCGAATTCATCACTCGATTGATCATCTTTGACAGATAGAGTTCATAATGAGAA
66 TCAACCTTTTACTCGAATTCATCAATAGATTGACCAACTTT-ACAGATAGAGTTCATAATGAGAA
* **
14376826 GAACTCAACTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAA
130 GAACTCAACTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACATGTTCAACCTTTTGCT-AAA
* *
14376891 TTC-ATCAC-TCGAT-GGATCAACATTTCCAGA
194 TTCTATCACATAGATAGCATCAACATTTCCAGA
* *
14376921 AGTGTTCATAATGGGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
*
14376985 TCAACCTTTTGCTCG-ATTCTATCCCAGATGGAGATAAATCAGCACCAACATTT-CTAGA-AGGA
66 TCAACCTTTTACTCGAATTC-AT--CA-AT--AGAT---T--G-ACCAAC-TTTAC-AGATA-GA
*
14377047 GTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACATGTTCA
116 GTTCATAATGAGAAGAACTCAACTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACATGTTCA
** *
14377112 ACCTTTTGCTTGATTCTATCACAGAAGGAAATAGATCAGCATCAATATTTCCAGA
181 ACCTTTTGCTAAATTCTATCAC--------ATAGAT-AGCATCAACATTTCCAGA
* *
14377167 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAATTCATAATGAGAAGAATTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
14377231 TCAACCTT
66 TCAACCTT
14377239 GCCTTAATTC
Statistics
Matches: 269, Mismatches: 21, Indels: 35
0.83 0.06 0.11
Matches are distributed among these distances:
223 4 0.01
224 49 0.18
225 28 0.10
226 2 0.01
227 1 0.00
229 3 0.01
232 1 0.00
234 7 0.03
235 85 0.32
236 3 0.01
244 4 0.01
246 79 0.29
247 3 0.01
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (226 bp):
AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
TCAACCTTTTACTCGAATTCATCAATAGATTGACCAACTTTACAGATAGAGTTCATAATGAGAAG
AACTCAACTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACATGTTCAACCTTTTGCTAAATT
CTATCACATAGATAGCATCAACATTTCCAGA
Found at i:14377307 original size:63 final size:63
Alignment explanation
Indices: 14377234--14377355 Score: 190
Period size: 63 Copynumber: 1.9 Consensus size: 63
14377224 AATTTGTTCA
*
14377234 ACCTTGCCTTAATTCATAACATATGAAGCCAAATTAACAACCCATATTTTTAAAGATCAACAT
1 ACCTTGCCTTAATTCATAACATATGAAGACAAATTAACAACCCATATTTTTAAAGATCAACAT
* * * * *
14377297 ACCTTGCCTTAATTCATCATATATGAAGATAAATTAACAACCCCTCTTTTTAAAGATCA
1 ACCTTGCCTTAATTCATAACATATGAAGACAAATTAACAACCCATATTTTTAAAGATCA
14377356 TCATTTCCAG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (63 bp):
ACCTTGCCTTAATTCATAACATATGAAGACAAATTAACAACCCATATTTTTAAAGATCAACAT
Found at i:14377425 original size:20 final size:21
Alignment explanation
Indices: 14377370--14377427 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
14377360 TTCCAGAAGG
14377370 AGTTCATAATGAGAAGAACTCA
1 AGTTCATAATGAGAAGAA-TCA
* *
14377392 A-CTCA-AA-AAGAAGAAT-A
1 AGTTCATAATGAGAAGAATCA
14377409 AGTTCATAATGAGAAGAAT
1 AGTTCATAATGAGAAGAAT
14377428 TTGTTCAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
17 2 0.07
18 4 0.14
19 9 0.31
20 10 0.34
21 3 0.10
22 1 0.03
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (21 bp):
AGTTCATAATGAGAAGAATCA
Found at i:14377673 original size:3 final size:3
Alignment explanation
Indices: 14377667--14377739 Score: 82
Period size: 3 Copynumber: 25.0 Consensus size: 3
14377657 ATTTTGTTTT
*
14377667 TTA TTA TTA TTA TT- TTA TT- TGT- TTA TTA TTA TTG TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
*
14377709 TTA TTA TTA TTA TTA TTTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
14377740 CAAACAGGCC
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
2 6 0.10
3 52 0.85
4 3 0.05
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:14378277 original size:18 final size:18
Alignment explanation
Indices: 14378256--14378293 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
14378246 AGAGAGAGAG
14378256 AGAGAAAGACACAATGAT
1 AGAGAAAGACACAATGAT
*
14378274 AGAGGAAGACACAATGAT
1 AGAGAAAGACACAATGAT
14378292 AG
1 AG
14378294 CAACACCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.26, T:0.11
Consensus pattern (18 bp):
AGAGAAAGACACAATGAT
Done.